Samples description

Samples Source Country of origin Isolation date
MS0495 Cheese Georgia 03/08/2012
MS0496 Cheese Bolivia 03/08/2012
MS0497 Cheese Moldova 30/08/2012
MS0498 Meat Peru 30/05/2012
MS0499 Cheese Peru 30/05/2012
MS0500 Poultry Eq. Guinea 24/08/2012
MS0501 Poultry Eq. Guinea 24/08/2012
MS0502 Meat Bolivia 16/02/2013
MS0503 Meat Bolivia 16/02/2013
MS0504 Cheese Bolivia 16/02/2013


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Assembly analysis


Field Description
Sample Name of the sample
Reads Total number of reads after quality filtering
AvgReadLen Average read length after quality filtering
Contigs Number of contigs of the draft genome (>200bp)
GenomeLength Length (bp) of the draft genome
AvgContigLen Average contig length (>200bp)
N50 “Length of the smallest contig in the set that contains the fewest (largest) contigs whose combined length represents at least 50% of the assembly” (Miller et al., 2010)
GC GC content (%) of the draft genome
Depth Number of times each nucleotide position in the draft genome has a read that align to that position
Specie Specie identification by Kraken
PercentID Number of reads (%) assigned as that specie by Kraken

Contig ordering was performed against file: ../Salmonella_references/S_enterica_CT_02021853.fasta


Sample Reads AvgReadLen Contigs GenomeLength AvgContigLen N50 GC Depth Specie PercentID
MS0495 587544 259 41 4650624 640249 308791 52.26 32X Salmonella enterica 98.25
MS0496 888038 254 107 4763977 336019 136467 52.15 47X Salmonella enterica 94.20
MS0497 622536 257 91 4643658 438202 128141 52.29 34X Salmonella enterica 98.25
MS0498 673312 260 154 4757288 225116 83927 52.17 36X Salmonella enterica 94.55
MS0499 828090 247 115 4760115 414408 99676 52.16 42X Salmonella enterica 94.54
MS0500 793160 257 64 4652143 439190 174151 52.15 43X Salmonella enterica 97.47
MS0501 666626 261 178 4560864 209922 65339 52.19 38X Salmonella enterica 98.87
MS0502 692768 256 73 4637517 558286 204883 52.17 38X Salmonella enterica 97.83
MS0503 620020 257 74 4634553 408239 198288 52.17 34X Salmonella enterica 97.96
MS0504 542482 262 188 4709098 206809 52159 52.29 30X Salmonella enterica 97.80

Select the parameter

Number of reads
## Warning: package 'bindrcpp' was built under R version 3.4.4

Average number of reads per sample = 691458

Average read length

Average read length per sample = 257 bp

Number of contigs

Average number of contigs per sample = 108

Draft genome length

Average draft genome length per sample = 4676984 bp

Average contig length

Average contig length per sample = 387644 bp

N50

Average N50 per sample = 145182 bp

GC content

Average GC content per sample = 52.2%

Sequencing depth

Average sequencing depth = 37.4X


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MLST

Further details can be found in mlst web page.

Symbol Meaning
~ novel full length allele similar to match
? partial match to known allele
- allele missing


Scheme ST 1 2 3 4 5 6 7
MS0495 senterica 4 aroC(43) dnaN(41) hemD(16) hisD(13) purE(34) sucA(13) thrA(4)
MS0496 senterica 279 aroC(62) dnaN(95) hemD(54) hisD(96) purE(100) sucA(9) thrA(100)
MS0497 senterica 4 aroC(43) dnaN(41) hemD(16) hisD(13) purE(34) sucA(13) thrA(4)
MS0498 senterica 279 aroC(62) dnaN(95) hemD(54) hisD(96) purE(100) sucA(9) thrA(100)
MS0499 senterica 279 aroC(62) dnaN(95) hemD(54) hisD(96) purE(100) sucA(9) thrA(100)
MS0500 senterica 11 aroC(5) dnaN(2) hemD(3) hisD(7) purE(6) sucA(6) thrA(11)
MS0501 senterica 23 aroC(13) dnaN(11) hemD(16) hisD(15) purE(12) sucA(15) thrA(4)
MS0502 senterica 64 aroC(10) dnaN(14) hemD(15) hisD(31) purE(25) sucA(20) thrA(33)
MS0503 senterica 64 aroC(10) dnaN(14) hemD(15) hisD(31) purE(25) sucA(20) thrA(33)
MS0504 senterica 45 aroC(10) dnaN(7) hemD(21) hisD(14) purE(15) sucA(12) thrA(12)


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Serotyping

Sample Subspecie Serovar Serogroup H1 H2 Quality Control
MS0495 enterica Montevideo C1 g,m,[p],s - PASS
MS0496 enterica I 4,[5],12:d:- B d - PASS
MS0497 enterica Montevideo C1 g,m,[p],s - PASS
MS0498 enterica I 4,[5],12:d:- B d - PASS
MS0499 enterica I 4,[5],12:d:- B d - PASS
MS0500 enterica Enteritidis D1 g,m - PASS
MS0501 enterica Oranienburg C1 m,t - PASS
MS0502 enterica Anatum E1 e,h 1,6 PASS
MS0503 enterica Anatum E1 e,h 1,6 PASS
MS0504 enterica Newport C2-C3 e,h 1,2 PASS


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Pangenome analysis

Pangenome genes summary

Genes Description Number
Core genes (99% <= strains <= 100%) 3602
Soft core genes (95% <= strains < 99%) 0
Shell genes (15% <= strains < 95%) 1607
Cloud genes (0% <= strains < 15%) 614
Total genes (0% <= strains <= 100%) 5823

Pangenome genes presence-absence


Pangenome tree representation

Rectangular (phylogram)

Circular (phylogram)

Rectangular (cladogram)

Circular (cladogram)


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Antibiotic resistance

The search of antibiotic resistance genes was performed by screening of the draft genome against Resfinder (ref), CARD (ref) and ARG-ANNOT (ref) databases by using Abricate. Any hit with coverage and/or identity below 90% was removed.


Field Description
Contig Contig name where the gene was found
Start Start position of the gene within the contig
End End position of the gene within the contig
Gene Antibiotic resistance gene
Gaps Gaps in subject (draft genome) and query (antibiotic resistance genes)
Coverage Proportion (%) of the gene covered
Identity Proportion (%) of exact nucleotide matches
Accession Accesion number of the antibiotic resistance gene
Product Antibiotic resistance gene product


Select the samples and the database

MS0495
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_2 length_586740 cov_13.4114 170029 170466 aac(6’)-Iaa_1 0/0 100 97.9 NC_003197 aac(6’)-Iaa_1
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_2 length_586740 cov_13.4114 170028 170466 AAC(6’)-Iy 0/0 100 98.4 AF144880:3542-3980 AAC(6’)-Iy is a chromosomal-encoded aminoglycoside acetyltransferase in S. enteritidis and S. enterica. Regulatory mutation required to increase expression of this chromosomally-encoded gene for resistance. In the specific system aminoglycoside resistance was due to a transcriptional fusion secondary to a chromosomal deletion in which the downstream aac(6’)-Iy gene was placed under the control of the upstream nmpC promoter.
NODE_4 length_313823 cov_16.4377 103427 103892 golS 0/0 100 99.4 NC_003197:400860-401325 GolS is a regulator activated by the presence of gold and promotes the expression of the MdsABC efflux pump.
NODE_4 length_313823 cov_16.4377 99623 100829 mdsA 0/0 100 98.4 NC_003197:397057-398263 MdsA is the membrane fusion protein of the multidrug and metal efflux complex MdsABC.
NODE_4 length_313823 cov_16.4377 96459 99627 mdsB 0/0 100 99.0 NC_003197:393893-397061 MdsB is the inner membrane transporter of the multidrug and metal efflux complex MdsABC.
NODE_4 length_313823 cov_16.4377 94985 96443 mdsC 0/0 100 97.9 NC_003197:392419-393877 MdsC is the outer membrane channel of the multidrug and metal efflux complex MdsABC.
NODE_9 length_225727 cov_13.6267 5582 7006 mdtK 0/0 100 98.6 CP014358.1:2161326-2162751 A multidrug and toxic compound extrusions (MATE) transporter conferring resistance to norfloxacin doxorubicin and acriflavine.
NODE_9 length_225727 cov_13.6267 53530 54253 sdiA 0/0 100 98.5 NC_003197:2039658-2040381 SdiA is a cell division regulator that is also a positive regulator of AcrAB only when it’s expressed from a plasmid. When the sdiA gene is on the chromosome it has no effect on expression of acrAB
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_2 length_586740 cov_13.4114 170029 170466 (AGly)Aac6-Iy 0/0 100 98.4 AF144880:3452-3979 (AGly)Aac6-Iy
MS0496
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_2 length_311067 cov_18.109 12513 12950 aac(6’)-Iaa_1 0/0 100 99.3 NC_003197 aac(6’)-Iaa_1
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_2 length_311067 cov_18.109 12512 12950 AAC(6’)-Iaa 0/0 100 99.3 NC_003197:1707358-1707796 AAC(6’)-Iaa is a chromosomal-encoded aminoglycoside acetyltransferase in S. typhimurium
NODE_10 length_157979 cov_23.6405 89747 90212 golS 0/0 100 99.4 NC_003197:400860-401325 GolS is a regulator activated by the presence of gold and promotes the expression of the MdsABC efflux pump.
NODE_10 length_157979 cov_23.6405 92809 94015 mdsA 0/0 100 99.3 NC_003197:397057-398263 MdsA is the membrane fusion protein of the multidrug and metal efflux complex MdsABC.
NODE_10 length_157979 cov_23.6405 94011 97179 mdsB 0/0 100 98.9 NC_003197:393893-397061 MdsB is the inner membrane transporter of the multidrug and metal efflux complex MdsABC.
NODE_10 length_157979 cov_23.6405 97195 98653 mdsC 0/0 100 98.6 NC_003197:392419-393877 MdsC is the outer membrane channel of the multidrug and metal efflux complex MdsABC.
NODE_5 length_238301 cov_19.1003 210842 212266 mdtK 0/0 100 99.0 CP014358.1:2161326-2162751 A multidrug and toxic compound extrusions (MATE) transporter conferring resistance to norfloxacin doxorubicin and acriflavine.
NODE_11 length_136467 cov_17.9726 36340 37063 sdiA 0/0 100 98.5 NC_003197:2039658-2040381 SdiA is a cell division regulator that is also a positive regulator of AcrAB only when it’s expressed from a plasmid. When the sdiA gene is on the chromosome it has no effect on expression of acrAB
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_2 length_311067 cov_18.109 12513 12950 (AGly)Aac6-Iaa 0/0 100 99.3 NC_003197:1707358-1707795 (AGly)Aac6-Iaa
MS0497
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_12 length_115250 cov_14.1838 52434 52871 aac(6’)-Iaa_1 0/0 100 97.9 NC_003197 aac(6’)-Iaa_1
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_12 length_115250 cov_14.1838 52434 52872 AAC(6’)-Iy 0/0 100 98.4 AF144880:3542-3980 AAC(6’)-Iy is a chromosomal-encoded aminoglycoside acetyltransferase in S. enteritidis and S. enterica. Regulatory mutation required to increase expression of this chromosomally-encoded gene for resistance. In the specific system aminoglycoside resistance was due to a transcriptional fusion secondary to a chromosomal deletion in which the downstream aac(6’)-Iy gene was placed under the control of the upstream nmpC promoter.
NODE_23 length_64776 cov_17.0389 22287 22752 golS 0/0 100 99.4 NC_003197:400860-401325 GolS is a regulator activated by the presence of gold and promotes the expression of the MdsABC efflux pump.
NODE_23 length_64776 cov_17.0389 25350 26556 mdsA 0/0 100 98.4 NC_003197:397057-398263 MdsA is the membrane fusion protein of the multidrug and metal efflux complex MdsABC.
NODE_23 length_64776 cov_17.0389 26552 29720 mdsB 0/0 100 99.0 NC_003197:393893-397061 MdsB is the inner membrane transporter of the multidrug and metal efflux complex MdsABC.
NODE_23 length_64776 cov_17.0389 29736 31194 mdsC 0/0 100 97.9 NC_003197:392419-393877 MdsC is the outer membrane channel of the multidrug and metal efflux complex MdsABC.
NODE_51 length_17197 cov_16.0824 10192 11616 mdtK 0/0 100 98.6 CP014358.1:2161326-2162751 A multidrug and toxic compound extrusions (MATE) transporter conferring resistance to norfloxacin doxorubicin and acriflavine.
NODE_13 length_112638 cov_15.7484 75571 76294 sdiA 0/0 100 98.5 NC_003197:2039658-2040381 SdiA is a cell division regulator that is also a positive regulator of AcrAB only when it’s expressed from a plasmid. When the sdiA gene is on the chromosome it has no effect on expression of acrAB
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_12 length_115250 cov_14.1838 52434 52871 (AGly)Aac6-Iy 0/0 100 98.4 AF144880:3452-3979 (AGly)Aac6-Iy
MS0498
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_27 length_65470 cov_13.5488 52426 52863 aac(6’)-Iaa_1 0/0 100 99.3 NC_003197 aac(6’)-Iaa_1
NODE_95 length_2826 cov_1538.31 1092 1736 qnrB19_1 0/0 100 100.0 EU432277 qnrB19_1
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_27 length_65470 cov_13.5488 52426 52864 AAC(6’)-Iaa 0/0 100 99.3 NC_003197:1707358-1707796 AAC(6’)-Iaa is a chromosomal-encoded aminoglycoside acetyltransferase in S. typhimurium
NODE_4 length_153648 cov_17.5344 89707 90172 golS 0/0 100 99.4 NC_003197:400860-401325 GolS is a regulator activated by the presence of gold and promotes the expression of the MdsABC efflux pump.
NODE_4 length_153648 cov_17.5344 92769 93975 mdsA 0/0 100 99.3 NC_003197:397057-398263 MdsA is the membrane fusion protein of the multidrug and metal efflux complex MdsABC.
NODE_4 length_153648 cov_17.5344 93971 97139 mdsB 0/0 100 98.9 NC_003197:393893-397061 MdsB is the inner membrane transporter of the multidrug and metal efflux complex MdsABC.
NODE_4 length_153648 cov_17.5344 97155 98613 mdsC 0/0 100 98.6 NC_003197:392419-393877 MdsC is the outer membrane channel of the multidrug and metal efflux complex MdsABC.
NODE_15 length_93408 cov_15.3063 20276 21700 mdtK 0/0 100 99.0 CP014358.1:2161326-2162751 A multidrug and toxic compound extrusions (MATE) transporter conferring resistance to norfloxacin doxorubicin and acriflavine.
NODE_95 length_2826 cov_1538.31 1056 1736 QnrB5 0/0 100 99.1 DQ303919:1-682 QnrB5 is a plasmid-mediated quinolone resistance protein found in Salmonella enterica
NODE_9 length_115205 cov_14.3578 36324 37047 sdiA 0/0 100 98.5 NC_003197:2039658-2040381 SdiA is a cell division regulator that is also a positive regulator of AcrAB only when it’s expressed from a plasmid. When the sdiA gene is on the chromosome it has no effect on expression of acrAB
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_27 length_65470 cov_13.5488 52426 52863 (AGly)Aac6-Iaa 0/0 100 99.3 NC_003197:1707358-1707795 (AGly)Aac6-Iaa
NODE_95 length_2826 cov_1538.31 1056 1736 (Flq)QnrB5 0/0 100 99.1 DQ303919:1-681 (Flq)QnrB5
MS0499
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_5 length_224057 cov_15.0684 87858 88295 aac(6’)-Iaa_1 0/0 100 99.3 NC_003197 aac(6’)-Iaa_1
NODE_71 length_2826 cov_1536.91 1092 1736 qnrB19_1 0/0 100 100.0 EU432277 qnrB19_1
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_5 length_224057 cov_15.0684 87857 88295 AAC(6’)-Iaa 0/0 100 99.3 NC_003197:1707358-1707796 AAC(6’)-Iaa is a chromosomal-encoded aminoglycoside acetyltransferase in S. typhimurium
NODE_2 length_403701 cov_18.9992 338806 339271 golS 0/0 100 99.4 NC_003197:400860-401325 GolS is a regulator activated by the presence of gold and promotes the expression of the MdsABC efflux pump.
NODE_2 length_403701 cov_18.9992 341868 343074 mdsA 0/0 100 99.3 NC_003197:397057-398263 MdsA is the membrane fusion protein of the multidrug and metal efflux complex MdsABC.
NODE_2 length_403701 cov_18.9992 343070 346238 mdsB 0/0 100 98.9 NC_003197:393893-397061 MdsB is the inner membrane transporter of the multidrug and metal efflux complex MdsABC.
NODE_2 length_403701 cov_18.9992 346254 347712 mdsC 0/0 100 98.6 NC_003197:392419-393877 MdsC is the outer membrane channel of the multidrug and metal efflux complex MdsABC.
NODE_4 length_236778 cov_16.7821 209399 210823 mdtK 0/0 100 99.0 CP014358.1:2161326-2162751 A multidrug and toxic compound extrusions (MATE) transporter conferring resistance to norfloxacin doxorubicin and acriflavine.
NODE_71 length_2826 cov_1536.91 1056 1736 QnrB5 0/0 100 99.1 DQ303919:1-682 QnrB5 is a plasmid-mediated quinolone resistance protein found in Salmonella enterica
NODE_7 length_162718 cov_15.3676 147588 148311 sdiA 0/0 100 98.5 NC_003197:2039658-2040381 SdiA is a cell division regulator that is also a positive regulator of AcrAB only when it’s expressed from a plasmid. When the sdiA gene is on the chromosome it has no effect on expression of acrAB
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_5 length_224057 cov_15.0684 87858 88295 (AGly)Aac6-Iaa 0/0 100 99.3 NC_003197:1707358-1707795 (AGly)Aac6-Iaa
NODE_71 length_2826 cov_1536.91 1056 1736 (Flq)QnrB5 0/0 100 99.1 DQ303919:1-681 (Flq)QnrB5
MS0500
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_2 length_343106 cov_18.4156 51079 51516 aac(6’)-Iaa_1 0/0 100 96.3 NC_003197 aac(6’)-Iaa_1
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_2 length_343106 cov_18.4156 51078 51516 AAC(6’)-Iy 0/0 100 96.8 AF144880:3542-3980 AAC(6’)-Iy is a chromosomal-encoded aminoglycoside acetyltransferase in S. enteritidis and S. enterica. Regulatory mutation required to increase expression of this chromosomally-encoded gene for resistance. In the specific system aminoglycoside resistance was due to a transcriptional fusion secondary to a chromosomal deletion in which the downstream aac(6’)-Iy gene was placed under the control of the upstream nmpC promoter.
NODE_1 length_439190 cov_21.4436 80973 81438 golS 0/0 100 99.6 NC_003197:400860-401325 GolS is a regulator activated by the presence of gold and promotes the expression of the MdsABC efflux pump.
NODE_1 length_439190 cov_21.4436 77170 78376 mdsA 0/0 100 98.8 NC_003197:397057-398263 MdsA is the membrane fusion protein of the multidrug and metal efflux complex MdsABC.
NODE_1 length_439190 cov_21.4436 74006 77174 mdsB 0/0 100 99.5 NC_003197:393893-397061 MdsB is the inner membrane transporter of the multidrug and metal efflux complex MdsABC.
NODE_1 length_439190 cov_21.4436 72532 73990 mdsC 0/0 100 98.3 NC_003197:392419-393877 MdsC is the outer membrane channel of the multidrug and metal efflux complex MdsABC.
NODE_22 length_65495 cov_19.9673 18811 20235 mdtK 0/0 100 98.8 CP014358.1:2161326-2162751 A multidrug and toxic compound extrusions (MATE) transporter conferring resistance to norfloxacin doxorubicin and acriflavine.
NODE_11 length_170699 cov_18.423 128452 129175 sdiA 0/0 100 99.3 NC_003197:2039658-2040381 SdiA is a cell division regulator that is also a positive regulator of AcrAB only when it’s expressed from a plasmid. When the sdiA gene is on the chromosome it has no effect on expression of acrAB
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_2 length_343106 cov_18.4156 51079 51516 (AGly)Aac6-Iy 0/0 100 96.8 AF144880:3452-3979 (AGly)Aac6-Iy
MS0501
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_50 length_31448 cov_14.8458 15446 15883 aac(6’)-Iaa_1 0/0 100 97.9 NC_003197 aac(6’)-Iaa_1
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_50 length_31448 cov_14.8458 15446 15884 AAC(6’)-Iy 0/0 100 98.4 AF144880:3542-3980 AAC(6’)-Iy is a chromosomal-encoded aminoglycoside acetyltransferase in S. enteritidis and S. enterica. Regulatory mutation required to increase expression of this chromosomally-encoded gene for resistance. In the specific system aminoglycoside resistance was due to a transcriptional fusion secondary to a chromosomal deletion in which the downstream aac(6’)-Iy gene was placed under the control of the upstream nmpC promoter.
NODE_19 length_66119 cov_19.6698 42035 42500 golS 0/0 100 99.4 NC_003197:400860-401325 GolS is a regulator activated by the presence of gold and promotes the expression of the MdsABC efflux pump.
NODE_19 length_66119 cov_19.6698 38232 39438 mdsA 0/0 100 98.8 NC_003197:397057-398263 MdsA is the membrane fusion protein of the multidrug and metal efflux complex MdsABC.
NODE_19 length_66119 cov_19.6698 35068 38236 mdsB 0/0 100 99.0 NC_003197:393893-397061 MdsB is the inner membrane transporter of the multidrug and metal efflux complex MdsABC.
NODE_19 length_66119 cov_19.6698 33594 35052 mdsC 0/0 100 98.4 NC_003197:392419-393877 MdsC is the outer membrane channel of the multidrug and metal efflux complex MdsABC.
NODE_79 length_14440 cov_16.116 5595 7019 mdtK 0/0 100 98.7 CP014358.1:2161326-2162751 A multidrug and toxic compound extrusions (MATE) transporter conferring resistance to norfloxacin doxorubicin and acriflavine.
NODE_27 length_54018 cov_17.5413 36185 36908 sdiA 0/0 100 98.8 NC_003197:2039658-2040381 SdiA is a cell division regulator that is also a positive regulator of AcrAB only when it’s expressed from a plasmid. When the sdiA gene is on the chromosome it has no effect on expression of acrAB
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_50 length_31448 cov_14.8458 15446 15883 (AGly)Aac6-Iy 0/0 100 98.4 AF144880:3452-3979 (AGly)Aac6-Iy
MS0502
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_1 length_558286 cov_14.6997 474259 474696 aac(6’)-Iaa_1 0/0 100 99.1 NC_003197 aac(6’)-Iaa_1
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_1 length_558286 cov_14.6997 474259 474697 AAC(6’)-Iy 0/0 100 99.5 AF144880:3542-3980 AAC(6’)-Iy is a chromosomal-encoded aminoglycoside acetyltransferase in S. enteritidis and S. enterica. Regulatory mutation required to increase expression of this chromosomally-encoded gene for resistance. In the specific system aminoglycoside resistance was due to a transcriptional fusion secondary to a chromosomal deletion in which the downstream aac(6’)-Iy gene was placed under the control of the upstream nmpC promoter.
NODE_8 length_198416 cov_20.1779 89718 90183 golS 0/0 100 98.9 NC_003197:400860-401325 GolS is a regulator activated by the presence of gold and promotes the expression of the MdsABC efflux pump.
NODE_8 length_198416 cov_20.1779 92780 93986 mdsA 0/0 100 98.7 NC_003197:397057-398263 MdsA is the membrane fusion protein of the multidrug and metal efflux complex MdsABC.
NODE_8 length_198416 cov_20.1779 93982 97150 mdsB 0/0 100 99.1 NC_003197:393893-397061 MdsB is the inner membrane transporter of the multidrug and metal efflux complex MdsABC.
NODE_8 length_198416 cov_20.1779 97166 98624 mdsC 0/0 100 98.6 NC_003197:392419-393877 MdsC is the outer membrane channel of the multidrug and metal efflux complex MdsABC.
NODE_2 length_395533 cov_15.2345 72990 74414 mdtK 0/0 100 99.1 CP014358.1:2161326-2162751 A multidrug and toxic compound extrusions (MATE) transporter conferring resistance to norfloxacin doxorubicin and acriflavine.
NODE_2 length_395533 cov_15.2345 142493 143216 sdiA 0/0 100 99.0 NC_003197:2039658-2040381 SdiA is a cell division regulator that is also a positive regulator of AcrAB only when it’s expressed from a plasmid. When the sdiA gene is on the chromosome it has no effect on expression of acrAB
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_1 length_558286 cov_14.6997 474259 474696 (AGly)Aac6-Iy 0/0 100 99.5 AF144880:3452-3979 (AGly)Aac6-Iy
MS0503
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_2 length_403085 cov_13.5055 175360 175797 aac(6’)-Iaa_1 0/0 100 99.1 NC_003197 aac(6’)-Iaa_1
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_2 length_403085 cov_13.5055 175359 175797 AAC(6’)-Iy 0/0 100 99.5 AF144880:3542-3980 AAC(6’)-Iy is a chromosomal-encoded aminoglycoside acetyltransferase in S. enteritidis and S. enterica. Regulatory mutation required to increase expression of this chromosomally-encoded gene for resistance. In the specific system aminoglycoside resistance was due to a transcriptional fusion secondary to a chromosomal deletion in which the downstream aac(6’)-Iy gene was placed under the control of the upstream nmpC promoter.
NODE_8 length_198288 cov_17.7731 108121 108586 golS 0/0 100 98.9 NC_003197:400860-401325 GolS is a regulator activated by the presence of gold and promotes the expression of the MdsABC efflux pump.
NODE_8 length_198288 cov_17.7731 104318 105524 mdsA 0/0 100 98.7 NC_003197:397057-398263 MdsA is the membrane fusion protein of the multidrug and metal efflux complex MdsABC.
NODE_8 length_198288 cov_17.7731 101154 104322 mdsB 0/0 100 99.1 NC_003197:393893-397061 MdsB is the inner membrane transporter of the multidrug and metal efflux complex MdsABC.
NODE_8 length_198288 cov_17.7731 99680 101138 mdsC 0/0 100 98.6 NC_003197:392419-393877 MdsC is the outer membrane channel of the multidrug and metal efflux complex MdsABC.
NODE_27 length_36756 cov_14.8978 10551 11975 mdtK 0/0 100 99.1 CP014358.1:2161326-2162751 A multidrug and toxic compound extrusions (MATE) transporter conferring resistance to norfloxacin doxorubicin and acriflavine.
NODE_10 length_196382 cov_14.5915 36337 37060 sdiA 0/0 100 99.0 NC_003197:2039658-2040381 SdiA is a cell division regulator that is also a positive regulator of AcrAB only when it’s expressed from a plasmid. When the sdiA gene is on the chromosome it has no effect on expression of acrAB
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_2 length_403085 cov_13.5055 175360 175797 (AGly)Aac6-Iy 0/0 100 99.5 AF144880:3452-3979 (AGly)Aac6-Iy
MS0504
Resfinder
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_62 length_27019 cov_12.7387 14103 14540 aac(6’)-Iaa_1 0/0 100 99.5 NC_003197 aac(6’)-Iaa_1
CARD
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_62 length_27019 cov_12.7387 14103 14541 AAC(6’)-Iy 0/0 100 100.0 AF144880:3542-3980 AAC(6’)-Iy is a chromosomal-encoded aminoglycoside acetyltransferase in S. enteritidis and S. enterica. Regulatory mutation required to increase expression of this chromosomally-encoded gene for resistance. In the specific system aminoglycoside resistance was due to a transcriptional fusion secondary to a chromosomal deletion in which the downstream aac(6’)-Iy gene was placed under the control of the upstream nmpC promoter.
NODE_32 length_46760 cov_15.3308 22637 23102 golS 0/0 100 99.4 NC_003197:400860-401325 GolS is a regulator activated by the presence of gold and promotes the expression of the MdsABC efflux pump.
NODE_32 length_46760 cov_15.3308 18834 20040 mdsA 0/0 100 98.9 NC_003197:397057-398263 MdsA is the membrane fusion protein of the multidrug and metal efflux complex MdsABC.
NODE_32 length_46760 cov_15.3308 15670 18838 mdsB 0/0 100 99.6 NC_003197:393893-397061 MdsB is the inner membrane transporter of the multidrug and metal efflux complex MdsABC.
NODE_32 length_46760 cov_15.3308 14196 15654 mdsC 0/0 100 99.5 NC_003197:392419-393877 MdsC is the outer membrane channel of the multidrug and metal efflux complex MdsABC.
NODE_36 length_43603 cov_13.8252 16229 17653 mdtK 0/0 100 99.0 CP014358.1:2161326-2162751 A multidrug and toxic compound extrusions (MATE) transporter conferring resistance to norfloxacin doxorubicin and acriflavine.
NODE_35 length_43892 cov_14.2588 26097 26820 sdiA 0/0 100 98.8 NC_003197:2039658-2040381 SdiA is a cell division regulator that is also a positive regulator of AcrAB only when it’s expressed from a plasmid. When the sdiA gene is on the chromosome it has no effect on expression of acrAB
ARG-ANNOT
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_62 length_27019 cov_12.7387 14103 14540 (AGly)Aac6-Iy 0/0 100 100 AF144880:3452-3979 (AGly)Aac6-Iy


Summary figures

Presence/Absence of antibiotic resistance genes (coverage and identity > 90%) on each sample.

Select the database:
Resfinder
CARD
ARG-ANNOT


Antibiotic resistance genes (ResFinder) count


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Antibiotic resistance due to point mutations

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MS0495
## [1] "No known mutations from PointFinder database were found. For unknown mutations check point_mutations directory"
MS0496
## [1] "No known mutations from PointFinder database were found. For unknown mutations check point_mutations directory"
MS0497
## [1] "No known mutations from PointFinder database were found. For unknown mutations check point_mutations directory"
MS0498
## [1] "No known mutations from PointFinder database were found. For unknown mutations check point_mutations directory"
MS0499
## [1] "No known mutations from PointFinder database were found. For unknown mutations check point_mutations directory"
MS0500
## [1] "No known mutations from PointFinder database were found. For unknown mutations check point_mutations directory"
MS0501
## [1] "No known mutations from PointFinder database were found. For unknown mutations check point_mutations directory"
MS0502
## [1] "No known mutations from PointFinder database were found. For unknown mutations check point_mutations directory"
MS0503
## [1] "No known mutations from PointFinder database were found. For unknown mutations check point_mutations directory"
MS0504
## [1] "No known mutations from PointFinder database were found. For unknown mutations check point_mutations directory"


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Virulence genes

The search of virulence genes was performed by screening of the draft genome against Virulence Factors Data Base (VFDB, ref) by using Abricate. Any hit with coverage and/or identity below 90% was removed. To see description of each field, click here.


Select the sample

MS0495
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_1 length_640249 cov_18.3026 372994 373536 bcfA 0/0 100.0 98.5 NP_459026 (bcfA) fimbrial subunit [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_640249 cov_18.3026 373637 374323 bcfB 0/0 100.0 99.4 NP_459027 (bcfB) fimbrial chaparone [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_640249 cov_18.3026 374328 376948 bcfC 1/1 100.0 98.4 NP_459028 (bcfC) fimbrial usher [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_640249 cov_18.3026 376949 377956 bcfD 0/0 100.0 97.7 NP_459029 (bcfD) fimbrial adhesin protein [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_640249 cov_18.3026 377957 378502 bcfE 0/0 100.0 98.0 NP_459030 (bcfE) fimbrial subunit [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_640249 cov_18.3026 378518 379036 bcfF 0/0 100.0 97.9 NP_459031 (bcfF) fimbrial subunit [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_640249 cov_18.3026 379002 379733 bcfG 0/0 100.0 97.8 NP_459032 (bcfG) fimbrial chaparone [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_586740 cov_13.4114 546503 547312 cdtB 0/0 100.0 99.9 NP_456275 (cdtB) cytolethal distending toxin B [CdtB (VF0407)] [Salmonella enterica subsp. enterica serovar Typhi str. CT18]
NODE_10 length_155157 cov_14.382 70219 70674 csgA 0/0 100.0 98.9 NP_460115 (csgA) curlin major subunit CsgA [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_155157 cov_14.382 70716 71171 csgB 0/0 100.0 99.3 NP_460114 (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_155157 cov_14.382 69831 70157 csgC 0/0 100.0 99.7 NP_460116 (csgC) curli assembly protein CsgC [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_155157 cov_14.382 71926 72576 csgD 0/0 100.0 99.2 NP_460113 (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_155157 cov_14.382 72581 72976 csgE 0/0 100.0 99.5 NP_460112 (csgE) curli production assembly/transport protein CsgE [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_155157 cov_14.382 73003 73419 csgF 0/0 100.0 99.8 NP_460111 (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_155157 cov_14.382 73446 74279 csgG 0/0 100.0 99.3 NP_460110 (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_313823 cov_16.4377 303273 303965 fimC 0/0 100.0 98.7 NP_459540 (fimC) chaperone protein FimC [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_313823 cov_16.4377 303996 306608 fimD 0/0 100.0 98.8 NP_459541 (fimD) usher protein FimD [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_313823 cov_16.4377 307640 308157 fimF 0/0 99.8 98.5 NP_459543 (fimF) type I fimbriae adaptor protein FimF [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_313823 cov_16.4377 306623 307630 fimH 0/0 100.0 98.4 NP_459542 (fimH) type I fimbriae minor fimbrial subunit FimH adhesin [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_313823 cov_16.4377 302696 303229 fimI 0/0 100.0 98.1 NP_459539 (fimI) fimbrial protein internal segment [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_551600 cov_18.0739 207694 209751 invA 0/0 100.0 99.1 NP_461817 (invA) type III secretion system major export apparatus protein InvA [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_551600 cov_18.0739 207263 207670 invB 0/0 100.0 99.3 NP_461816 (invB) type III secretion system protein InvB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_551600 cov_18.0739 205971 207266 invC 0/0 100.0 99.1 NP_461815 (invC) type III secretion system ATPase InvC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_551600 cov_18.0739 209776 210894 invE 0/0 100.0 99.2 NP_461818 (invE) type III secretion system gatekeeper invE [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_551600 cov_18.0739 212576 213226 invF 0/0 100.0 98.8 NP_461820 (invF) type III secretion system regulatory protein InvF [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_551600 cov_18.0739 210891 212579 invG 0/0 100.0 98.9 NP_461819 (invG) type III secretion system secretin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_551600 cov_18.0739 213683 214126 invH 0/0 100.0 98.9 NP_461821 (invH) type III secretion system pilotin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_551600 cov_18.0739 205550 205993 invI 0/0 100.0 99.5 NP_461814 (invI) type III secretion system stalk protein InvI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_551600 cov_18.0739 204540 205550 invJ 0/0 100.0 99.4 NP_461813 (invJ) type III secretion system needle length regulator InvJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_95766 cov_20.1625 44828 47554 mgtB 0/0 100.0 98.8 NP_462662 (mgtB) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_95766 cov_20.1625 47773 48468 mgtC 0/0 100.0 98.4 NP_462663 (mgtC) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_551600 cov_18.0739 99434 100330 mig-14 0/0 100.0 97.2 NP_461708 (mig-14) antimicrobial peptide resistance protein Mig-14 [Mig-14 (VF0395)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_95766 cov_20.1625 38121 40973 misL 1/15 99.5 97.7 NP_462656 (misL) putative autotransporter [MisL (VF0397)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_551600 cov_18.0739 183729 184328 orgA 0/0 100.0 99.2 NP_461791 (orgA) type III secretion system accessory cytosolic protein OrgA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_551600 cov_18.0739 183082 183772 orgB 1/10 100.0 97.8 NP_461790 (orgB) type III secretion system stator OrgB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_551600 cov_18.0739 182633 183085 orgC 0/0 100.0 98.5 NP_461789 (orgC) type III secretion system effector OrgC [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_155157 cov_14.382 124683 125558 pipB 0/0 100.0 98.9 NP_460061 (pipB) type III secretion system effector PipB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_551600 cov_18.0739 185646 186824 prgH 0/0 100.0 99.2 NP_461795 (prgH) type III secretion system outer MS ring protein PrgH [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_551600 cov_18.0739 185379 185621 prgI 0/0 100.0 100.0 NP_461794 (prgI) type III secretion system needle filament protein PrgI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_551600 cov_18.0739 185055 185360 prgJ 0/0 100.0 99.7 NP_461793 (prgJ) type III secretion system inner rod protein PrgJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_551600 cov_18.0739 184300 185058 prgK 0/0 100.0 99.6 NP_461792 (prgK) type III secretion system inner MS ring protein PrgK [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_8 length_243417 cov_15.3434 105454 112764 ratB 5/7 100.0 91.0 NP_461449 (ratB) putative outer membrane protein [RatB (VF0399)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_551600 cov_18.0739 200192 200689 sicA 0/0 100.0 99.4 NP_461807 (sicA) chaparone for SipC and SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_551600 cov_18.0739 192992 193384 sicP 0/0 100.0 99.2 NP_461800 (sicP) chaparone for SptP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_586740 cov_13.4114 573196 574206 sifA 0/0 100.0 96.2 NP_460194 (sifA) type III secretion system effector SifA N-terminal SKIP-binding domain C-terminal guanine nucleotide exchange factor activity [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_586740 cov_13.4114 184693 185643 sifB 0/0 100.0 95.6 NP_460561 (sifB) type III secretion system effector SifB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_8 length_243417 cov_15.3434 96387 98579 sinH 0/0 100.0 95.9 NP_461452 (sinH) intimin-like protein [SinH (VF0400)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_551600 cov_18.0739 193982 196039 sipA/sspA 0/0 100.0 98.3 NP_461803 (sipA/sspA) type III secretion system effector SipA actin polymerizing activity [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_551600 cov_18.0739 198408 200189 sipB/sspB 0/0 100.0 99.5 NP_461806 (sipB/sspB) type III secretion system hydrophilic translocator pore protein SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_551600 cov_18.0739 197151 198380 sipC/sspC 0/0 100.0 99.4 NP_461805 (sipC/sspC) type III secretion system hydrophilic translocator pore protein SipC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_551600 cov_18.0739 196058 197080 sipD 3/11 99.0 90.4 NP_461804 (sipD) type III secretion system hydrophilic translocator needle tip protein SipD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_260571 cov_14.4785 77992 80259 slrP 2/30 98.7 94.7 NP_459778 (slrP) type III secretion system effector SlrP E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_14 length_126356 cov_13.7393 78455 80803 sopA 0/0 100.0 97.4 NP_461011 (sopA) type III secretion system effector SopA E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_155157 cov_14.382 122091 123776 sopB/sigD 0/0 100.0 98.4 NP_460064 (sopB/sigD) type III secretion system effector SopB phosphoinositide phosphatase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_551600 cov_18.0739 256965 257918 sopD 0/0 100.0 97.9 NP_461866 (sopD) type III secretion system effector SopD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_260571 cov_14.4785 217318 218277 sopD2 0/0 100.0 93.2 NP_459947 (sopD2) type III secretion system effector SopD2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_225727 cov_13.6267 143223 143945 sopE2 0/0 100.0 97.0 NP_460811 (sopE2) type III secretion system effector SopE2 guanine nucleotide exchange factor [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_551600 cov_18.0739 203629 204540 spaO 0/0 100.0 99.5 NP_461812 (spaO) type III secretion system C ring protein SpaO [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_551600 cov_18.0739 202965 203639 spaP 0/0 100.0 98.8 NP_461811 (spaP) type III secretion system minor export apparatus protein SpaP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_551600 cov_18.0739 202679 202939 spaQ 0/0 100.0 99.6 NP_461810 (spaQ) type III secretion system minor export apparatus protein SpaQ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_551600 cov_18.0739 201884 202675 spaR 0/0 100.0 99.0 NP_461809 (spaR) type III secretion system minor export apparatus protein SpaR [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_551600 cov_18.0739 200827 201897 spaS 0/0 100.0 99.2 NP_461808 (spaS) type III secretion system export apparatus switch protein SpaS [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_586740 cov_13.4114 402072 402473 spiC/ssaB 0/0 100.0 99.2 NP_460358 (spiC/ssaB) type III secretion system protein SsaB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_551600 cov_18.0739 191374 193005 sptP 0/0 100.0 97.5 NP_461799 (sptP) type III secretion system effector SptP tyrosine phosphatase and GTPase-activating protein [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_586740 cov_13.4114 400577 402070 ssaC 0/0 100.0 98.5 NP_460359 (ssaC) type III secretion system secretin SsaC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_586740 cov_13.4114 399385 400596 ssaD 0/0 100.0 98.6 NP_460360 (ssaD) type III secretion system outer MS ring protein SsaD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_586740 cov_13.4114 399135 399377 ssaE 0/0 100.0 98.8 NP_460361 (ssaE) chaperone for sseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_586740 cov_13.4114 392720 392935 ssaG 0/0 100.0 100.0 NP_460371 (ssaG) type III secretion system needle filament protein SsaG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_586740 cov_13.4114 392452 392679 ssaH 0/0 100.0 99.6 NP_460372 (ssaH) type III secretion system protein SsaH [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_586740 cov_13.4114 392192 392440 ssaI 0/0 100.0 98.0 NP_460373 (ssaI) type III secretion system inner rod protein SsaI [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_586740 cov_13.4114 391446 392195 ssaJ 0/0 100.0 98.1 NP_460374 (ssaJ) type III secretion system inner MS ring protein SsaJ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_586740 cov_13.4114 390209 390883 ssaK 0/0 100.0 98.8 NP_460376 (ssaK) type III secretion system stator SsaK [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_586740 cov_13.4114 389227 390243 ssaL 0/0 100.0 98.9 NP_460377 (ssaL) type III secretion system gatekeeper SsaL [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_586740 cov_13.4114 388801 389169 ssaM 0/0 100.0 97.3 NP_460378 (ssaM) type III secretion system protein SsaM [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_586740 cov_13.4114 385474 386781 ssaN 1/6 100.0 98.5 NP_460380 (ssaN) type III secretion system ATPase SsaN [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_586740 cov_13.4114 385094 385471 ssaO 0/0 100.0 98.9 NP_460381 (ssaO) type III secretion system stalk protein SsaO [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_586740 cov_13.4114 384739 385113 ssaP 0/0 100.0 100.0 NP_460382 (ssaP) type III secretion system needle length regulator SsaP [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_586740 cov_13.4114 383790 384758 ssaQ 0/0 100.0 98.3 NP_460383 (ssaQ) type III secretion system C ring protein SsaQ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_586740 cov_13.4114 383075 383722 ssaR 0/0 100.0 98.9 NP_460384 (ssaR) type III secretion system minor export apparatus protein SsaR [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_586740 cov_13.4114 382812 383078 ssaS 0/0 100.0 99.6 NP_460385 (ssaS) type III secretion system minor export apparatus protein SsaS [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_586740 cov_13.4114 382032 382811 ssaT 0/0 100.0 97.6 NP_460386 (ssaT) type III secretion system minor export apparatus protein SsaT [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_586740 cov_13.4114 380977 382035 ssaU 0/0 100.0 98.2 NP_460387 (ssaU) type III secretion system export apparatus switch protein SsaU [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_586740 cov_13.4114 386771 388816 ssaV 0/0 100.0 98.9 NP_460379 (ssaV) type III secretion system major export apparatus protein ssaV [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_586740 cov_13.4114 397478 397951 sscA 0/0 100.0 97.3 NP_460364 (sscA) chaperone for sseC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_586740 cov_13.4114 394513 394947 sscB 0/0 100.0 99.5 NP_460368 (sscB) chaperone for sseF [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_586740 cov_13.4114 398545 398871 sseA 0/0 100.0 99.4 NP_460362 (sseA) chaperone for sseB and sseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_586740 cov_13.4114 397948 398538 sseB 0/0 100.0 97.5 NP_460363 (sseB) type III secretion system effector SseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_586740 cov_13.4114 396021 397475 sseC 0/0 100.0 97.2 NP_460365 (sseC) type III secretion system hydrophilic translocator pore protein SseC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_586740 cov_13.4114 395418 396005 sseD 0/0 100.0 96.8 NP_460366 (sseD) type III secretion system hydrophilic translocator pore protein SseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_586740 cov_13.4114 394999 395415 sseE 0/0 100.0 99.3 NP_460367 (sseE) type III secretion system effector SseE [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_586740 cov_13.4114 393715 394497 sseF 0/0 100.0 98.1 NP_460369 (sseF) type III secretion system effector SseF [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_586740 cov_13.4114 393029 393718 sseG 0/0 100.0 97.7 NP_460370 (sseG) type III secretion system effector SseG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_586740 cov_13.4114 155304 156530 sseJ 0/0 100.0 96.7 NP_460590 (sseJ) type III secretion system effector SseJ glycerophospholipid:cholesterol acyltransferase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_21 length_33132 cov_19.4242 13694 14704 sseK1 0/0 100.0 98.9 NP_463026 (sseK1) type III secretion system effector SseK1 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_11 length_154126 cov_14.7001 111528 112481 sseL 0/0 100.0 96.5 NP_461229 (sseL) type III secretion system effector SseL deubiquitinase [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_586740 cov_13.4114 207660 208292 steA 0/0 100.0 94.2 NP_460542 (steA) type III secretion system effector SteA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_586740 cov_13.4114 157801 158202 steB 0/0 100.0 95.5 AAL20547 (steB) type III secretion system effector SteB [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_586740 cov_13.4114 77837 79210 steC 0/0 100.0 94.9 NP_460656 (steC) type III secretion system effector SteC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
MS0496
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_1 length_336019 cov_22.7038 187964 188872 avrA 0/0 100.0 99.5 NP_461786 (avrA) type III secretion system effector AvrA acetyltransferease [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_12 length_135220 cov_24.871 8084 8626 bcfA 0/0 100.0 99.5 NP_459026 (bcfA) fimbrial subunit [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_12 length_135220 cov_24.871 7297 7983 bcfB 0/0 100.0 99.6 NP_459027 (bcfB) fimbrial chaparone [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_12 length_135220 cov_24.871 4671 7292 bcfC 0/0 100.0 98.9 NP_459028 (bcfC) fimbrial usher [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_12 length_135220 cov_24.871 3663 4670 bcfD 0/0 100.0 98.6 NP_459029 (bcfD) fimbrial adhesin protein [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_12 length_135220 cov_24.871 3117 3662 bcfE 0/0 100.0 98.2 NP_459030 (bcfE) fimbrial subunit [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_12 length_135220 cov_24.871 2583 3101 bcfF 0/0 100.0 98.1 NP_459031 (bcfF) fimbrial subunit [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_12 length_135220 cov_24.871 1886 2617 bcfG 0/0 100.0 98.4 NP_459032 (bcfG) fimbrial chaparone [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_238301 cov_19.1003 180763 181218 csgA 0/0 100.0 98.7 NP_460115 (csgA) curlin major subunit CsgA [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_238301 cov_19.1003 181260 181715 csgB 0/0 100.0 100.0 NP_460114 (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_238301 cov_19.1003 180375 180701 csgC 0/0 100.0 100.0 NP_460116 (csgC) curli assembly protein CsgC [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_238301 cov_19.1003 182470 183120 csgD 0/0 100.0 99.2 NP_460113 (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_238301 cov_19.1003 183125 183520 csgE 0/0 100.0 100.0 NP_460112 (csgE) curli production assembly/transport protein CsgE [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_238301 cov_19.1003 183547 183963 csgF 0/0 100.0 99.8 NP_460111 (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_238301 cov_19.1003 183990 184823 csgG 0/0 100.0 99.6 NP_460110 (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_249088 cov_21.088 114373 115065 fimC 0/0 100.0 98.7 NP_459540 (fimC) chaperone protein FimC [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_249088 cov_21.088 115096 117708 fimD 0/0 100.0 98.9 NP_459541 (fimD) usher protein FimD [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_249088 cov_21.088 118740 119258 fimF 0/0 100.0 98.3 NP_459543 (fimF) type I fimbriae adaptor protein FimF [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_249088 cov_21.088 117723 118730 fimH 0/0 100.0 97.9 NP_459542 (fimH) type I fimbriae minor fimbrial subunit FimH adhesin [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_249088 cov_21.088 113796 114329 fimI 0/0 100.0 99.1 NP_459539 (fimI) fimbrial protein internal segment [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_336019 cov_22.7038 158303 160360 invA 0/0 100.0 99.6 NP_461817 (invA) type III secretion system major export apparatus protein InvA [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_336019 cov_22.7038 160384 160791 invB 0/0 100.0 99.3 NP_461816 (invB) type III secretion system protein InvB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_336019 cov_22.7038 160788 162083 invC 0/0 100.0 99.4 NP_461815 (invC) type III secretion system ATPase InvC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_336019 cov_22.7038 157160 158278 invE 0/0 100.0 99.7 NP_461818 (invE) type III secretion system gatekeeper invE [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_336019 cov_22.7038 154828 155478 invF 0/0 100.0 99.7 NP_461820 (invF) type III secretion system regulatory protein InvF [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_336019 cov_22.7038 155475 157163 invG 0/0 100.0 99.5 NP_461819 (invG) type III secretion system secretin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_336019 cov_22.7038 153927 154370 invH 0/0 100.0 99.3 NP_461821 (invH) type III secretion system pilotin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_336019 cov_22.7038 162061 162504 invI 0/0 100.0 99.3 NP_461814 (invI) type III secretion system stalk protein InvI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_336019 cov_22.7038 162504 163514 invJ 0/0 100.0 99.3 NP_461813 (invJ) type III secretion system needle length regulator InvJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_221558 cov_23.7331 220921 221457 lpfA 0/0 100.0 96.8 NP_462541 (lpfA) long polar fimbria protein LpfA [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_221558 cov_23.7331 220139 220837 lpfB 0/0 100.0 98.7 NP_462540 (lpfB) long polar fimbrial chaperone protein LpfB [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_221558 cov_23.7331 217588 220116 lpfC 0/0 100.0 98.5 NP_462539 (lpfC) long polar fimbrial usher protein LpfC [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_221558 cov_23.7331 215973 216500 lpfE 0/0 100.0 99.2 NP_462537 (lpfE) long polar fimbrial minor subunit LpfE adhesin [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_107805 cov_25.9279 42677 45403 mgtB 0/0 100.0 98.8 NP_462662 (mgtB) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_107805 cov_25.9279 41762 42457 mgtC 0/0 100.0 99.0 NP_462663 (mgtC) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_336019 cov_22.7038 268365 269261 mig-14 0/0 100.0 97.7 NP_461708 (mig-14) antimicrobial peptide resistance protein Mig-14 [Mig-14 (VF0395)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_107805 cov_25.9279 49316 52183 misL 3/30 99.5 97.4 NP_462656 (misL) putative autotransporter [MisL (VF0397)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_336019 cov_22.7038 183735 184334 orgA 0/0 100.0 99.5 NP_461791 (orgA) type III secretion system accessory cytosolic protein OrgA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_336019 cov_22.7038 184291 184981 orgB 1/10 100.0 97.5 NP_461790 (orgB) type III secretion system stator OrgB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_336019 cov_22.7038 184978 185430 orgC 0/0 100.0 98.0 NP_461789 (orgC) type III secretion system effector OrgC [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_13 length_128252 cov_19.1426 21371 22246 pipB 0/0 100.0 98.7 NP_460061 (pipB) type III secretion system effector PipB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_336019 cov_22.7038 271002 272054 pipB2 0/0 100.0 93.9 NP_461706 (pipB2) type III secretion system effector PipB3 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_336019 cov_22.7038 181239 182417 prgH 0/0 100.0 99.3 NP_461795 (prgH) type III secretion system outer MS ring protein PrgH [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_336019 cov_22.7038 182442 182684 prgI 0/0 100.0 98.8 NP_461794 (prgI) type III secretion system needle filament protein PrgI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_336019 cov_22.7038 182703 183008 prgJ 0/0 100.0 99.7 NP_461793 (prgJ) type III secretion system inner rod protein PrgJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_336019 cov_22.7038 183005 183763 prgK 0/0 100.0 99.5 NP_461792 (prgK) type III secretion system inner MS ring protein PrgK [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_336019 cov_22.7038 167365 167862 sicA 0/0 100.0 99.4 NP_461807 (sicA) chaparone for SipC and SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_336019 cov_22.7038 174679 175071 sicP 0/0 100.0 99.5 NP_461800 (sicP) chaparone for SptP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_238301 cov_19.1003 101991 103001 sifA 0/0 100.0 96.1 NP_460194 (sifA) type III secretion system effector SifA N-terminal SKIP-binding domain C-terminal guanine nucleotide exchange factor activity [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_311067 cov_18.109 27176 28126 sifB 0/0 100.0 95.7 NP_460561 (sifB) type III secretion system effector SifB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_242135 cov_21.4062 193 2385 sinH 0/0 100.0 97.6 NP_461452 (sinH) intimin-like protein [SinH (VF0400)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_336019 cov_22.7038 172024 174081 sipA/sspA 0/0 100.0 99.2 NP_461803 (sipA/sspA) type III secretion system effector SipA actin polymerizing activity [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_336019 cov_22.7038 167865 169646 sipB/sspB 0/0 100.0 99.5 NP_461806 (sipB/sspB) type III secretion system hydrophilic translocator pore protein SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_336019 cov_22.7038 169674 170903 sipC/sspC 0/0 100.0 99.7 NP_461805 (sipC/sspC) type III secretion system hydrophilic translocator pore protein SipC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_336019 cov_22.7038 170974 172005 sipD 0/0 100.0 98.7 NP_461804 (sipD) type III secretion system hydrophilic translocator needle tip protein SipD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_26 length_59659 cov_19.1353 22818 25085 slrP 1/30 98.7 95.3 NP_459778 (slrP) type III secretion system effector SlrP E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_31 length_50067 cov_19.6621 22900 25248 sopA 0/0 100.0 98.1 NP_461011 (sopA) type III secretion system effector SopA E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_13 length_128252 cov_19.1426 18347 20032 sopB/sigD 0/0 100.0 97.6 NP_460064 (sopB/sigD) type III secretion system effector SopB phosphoinositide phosphatase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_336019 cov_22.7038 109757 110710 sopD 0/0 100.0 98.2 NP_461866 (sopD) type III secretion system effector SopD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_13 length_128252 cov_19.1426 97838 98797 sopD2 0/0 100.0 92.6 NP_459947 (sopD2) type III secretion system effector SopD2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_11 length_136467 cov_17.9726 115585 116307 sopE2 0/0 100.0 96.7 NP_460811 (sopE2) type III secretion system effector SopE2 guanine nucleotide exchange factor [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_336019 cov_22.7038 163514 164425 spaO 0/0 100.0 99.5 NP_461812 (spaO) type III secretion system C ring protein SpaO [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_336019 cov_22.7038 164415 165089 spaP 0/0 100.0 99.4 NP_461811 (spaP) type III secretion system minor export apparatus protein SpaP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_336019 cov_22.7038 165115 165375 spaQ 0/0 100.0 99.2 NP_461810 (spaQ) type III secretion system minor export apparatus protein SpaQ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_336019 cov_22.7038 165379 166170 spaR 0/0 100.0 99.6 NP_461809 (spaR) type III secretion system minor export apparatus protein SpaR [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_336019 cov_22.7038 166157 167227 spaS 0/0 100.0 99.9 NP_461808 (spaS) type III secretion system export apparatus switch protein SpaS [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_311067 cov_18.109 242392 242793 spiC/ssaB 0/0 100.0 99.8 NP_460358 (spiC/ssaB) type III secretion system protein SsaB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_336019 cov_22.7038 175058 176689 sptP 0/0 100.0 98.4 NP_461799 (sptP) type III secretion system effector SptP tyrosine phosphatase and GTPase-activating protein [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_311067 cov_18.109 240897 242390 ssaC 0/0 100.0 98.7 NP_460359 (ssaC) type III secretion system secretin SsaC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_311067 cov_18.109 239705 240916 ssaD 0/0 100.0 98.7 NP_460360 (ssaD) type III secretion system outer MS ring protein SsaD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_311067 cov_18.109 239455 239697 ssaE 0/0 100.0 98.8 NP_460361 (ssaE) chaperone for sseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_311067 cov_18.109 233042 233257 ssaG 0/0 100.0 99.1 NP_460371 (ssaG) type III secretion system needle filament protein SsaG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_311067 cov_18.109 232774 233001 ssaH 0/0 100.0 99.1 NP_460372 (ssaH) type III secretion system protein SsaH [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_311067 cov_18.109 232514 232762 ssaI 0/0 100.0 98.4 NP_460373 (ssaI) type III secretion system inner rod protein SsaI [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_311067 cov_18.109 231768 232517 ssaJ 0/0 100.0 98.5 NP_460374 (ssaJ) type III secretion system inner MS ring protein SsaJ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_311067 cov_18.109 230531 231205 ssaK 0/0 100.0 98.8 NP_460376 (ssaK) type III secretion system stator SsaK [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_311067 cov_18.109 229549 230565 ssaL 0/0 100.0 99.0 NP_460377 (ssaL) type III secretion system gatekeeper SsaL [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_311067 cov_18.109 229123 229491 ssaM 0/0 100.0 98.6 NP_460378 (ssaM) type III secretion system protein SsaM [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_311067 cov_18.109 225802 227103 ssaN 0/0 100.0 98.5 NP_460380 (ssaN) type III secretion system ATPase SsaN [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_311067 cov_18.109 225422 225799 ssaO 0/0 100.0 99.2 NP_460381 (ssaO) type III secretion system stalk protein SsaO [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_311067 cov_18.109 225067 225441 ssaP 0/0 100.0 98.7 NP_460382 (ssaP) type III secretion system needle length regulator SsaP [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_311067 cov_18.109 224118 225086 ssaQ 0/0 100.0 98.6 NP_460383 (ssaQ) type III secretion system C ring protein SsaQ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_311067 cov_18.109 223403 224050 ssaR 0/0 100.0 99.5 NP_460384 (ssaR) type III secretion system minor export apparatus protein SsaR [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_311067 cov_18.109 223140 223406 ssaS 0/0 100.0 100.0 NP_460385 (ssaS) type III secretion system minor export apparatus protein SsaS [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_311067 cov_18.109 222360 223139 ssaT 0/0 100.0 98.1 NP_460386 (ssaT) type III secretion system minor export apparatus protein SsaT [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_311067 cov_18.109 221305 222363 ssaU 0/0 100.0 97.7 NP_460387 (ssaU) type III secretion system export apparatus switch protein SsaU [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_311067 cov_18.109 227093 229138 ssaV 0/0 100.0 99.1 NP_460379 (ssaV) type III secretion system major export apparatus protein ssaV [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_311067 cov_18.109 237799 238272 sscA 0/0 100.0 97.7 NP_460364 (sscA) chaperone for sseC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_311067 cov_18.109 234834 235268 sscB 0/0 100.0 99.8 NP_460368 (sscB) chaperone for sseF [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_311067 cov_18.109 238866 239192 sseA 0/0 100.0 98.8 NP_460362 (sseA) chaperone for sseB and sseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_311067 cov_18.109 238269 238859 sseB 0/0 100.0 96.6 NP_460363 (sseB) type III secretion system effector SseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_311067 cov_18.109 236342 237796 sseC 0/0 100.0 95.7 NP_460365 (sseC) type III secretion system hydrophilic translocator pore protein SseC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_311067 cov_18.109 235739 236326 sseD 0/0 100.0 95.4 NP_460366 (sseD) type III secretion system hydrophilic translocator pore protein SseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_311067 cov_18.109 235320 235736 sseE 0/0 100.0 98.3 NP_460367 (sseE) type III secretion system effector SseE [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_311067 cov_18.109 234036 234818 sseF 0/0 100.0 97.8 NP_460369 (sseF) type III secretion system effector SseF [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_311067 cov_18.109 233350 234039 sseG 0/0 100.0 97.7 NP_460370 (sseG) type III secretion system effector SseG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_19 length_74778 cov_16.2228 479 1705 sseJ 0/0 100.0 96.4 NP_460590 (sseJ) type III secretion system effector SseJ glycerophospholipid:cholesterol acyltransferase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_14 length_112834 cov_20.1007 108117 109163 sseK2 0/0 100.0 99.1 NP_461081 (sseK2) type III secretion system effector SseK2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_20 length_74720 cov_19.205 41687 42640 sseL 0/0 100.0 94.8 NP_461229 (sseL) type III secretion system effector SseL deubiquitinase [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_311067 cov_18.109 50167 50799 steA 0/0 100.0 97.5 NP_460542 (steA) type III secretion system effector SteA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_311067 cov_18.109 285 686 steB 0/0 100.0 97.0 AAL20547 (steB) type III secretion system effector SteB [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_19 length_74778 cov_16.2228 73422 74777 steC 0/0 98.7 95.8 NP_460656 (steC) type III secretion system effector SteC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
MS0497
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_2 length_347102 cov_19.3095 163600 164142 bcfA 0/0 100.0 98.5 NP_459026 (bcfA) fimbrial subunit [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_347102 cov_19.3095 164243 164929 bcfB 0/0 100.0 99.4 NP_459027 (bcfB) fimbrial chaparone [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_347102 cov_19.3095 164934 167554 bcfC 1/1 100.0 98.4 NP_459028 (bcfC) fimbrial usher [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_347102 cov_19.3095 167555 168562 bcfD 0/0 100.0 97.7 NP_459029 (bcfD) fimbrial adhesin protein [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_347102 cov_19.3095 168563 169108 bcfE 0/0 100.0 98.0 NP_459030 (bcfE) fimbrial subunit [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_347102 cov_19.3095 169124 169642 bcfF 0/0 100.0 97.9 NP_459031 (bcfF) fimbrial subunit [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_347102 cov_19.3095 169608 170339 bcfG 0/0 100.0 97.8 NP_459032 (bcfG) fimbrial chaparone [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.9174 218540 219349 cdtB 0/0 100.0 99.9 NP_456275 (cdtB) cytolethal distending toxin B [CdtB (VF0407)] [Salmonella enterica subsp. enterica serovar Typhi str. CT18]
NODE_6 length_184030 cov_15.0903 99092 99547 csgA 0/0 100.0 98.9 NP_460115 (csgA) curlin major subunit CsgA [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_184030 cov_15.0903 99589 100044 csgB 0/0 100.0 99.3 NP_460114 (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_184030 cov_15.0903 98704 99030 csgC 0/0 100.0 99.7 NP_460116 (csgC) curli assembly protein CsgC [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_184030 cov_15.0903 100799 101449 csgD 0/0 100.0 99.2 NP_460113 (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_184030 cov_15.0903 101454 101849 csgE 0/0 100.0 99.5 NP_460112 (csgE) curli production assembly/transport protein CsgE [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_184030 cov_15.0903 101876 102292 csgF 0/0 100.0 99.8 NP_460111 (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_184030 cov_15.0903 102319 103152 csgG 0/0 100.0 99.3 NP_460110 (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_28 length_57551 cov_15.8638 9363 10055 fimC 0/0 100.0 98.7 NP_459540 (fimC) chaperone protein FimC [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_28 length_57551 cov_15.8638 6720 9332 fimD 0/0 100.0 98.8 NP_459541 (fimD) usher protein FimD [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_28 length_57551 cov_15.8638 5171 5688 fimF 0/0 99.8 98.5 NP_459543 (fimF) type I fimbriae adaptor protein FimF [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_28 length_57551 cov_15.8638 5698 6705 fimH 0/0 100.0 98.4 NP_459542 (fimH) type I fimbriae minor fimbrial subunit FimH adhesin [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_28 length_57551 cov_15.8638 10099 10632 fimI 0/0 100.0 98.1 NP_459539 (fimI) fimbrial protein internal segment [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_188460 cov_18.4717 61127 63184 invA 0/0 100.0 99.1 NP_461817 (invA) type III secretion system major export apparatus protein InvA [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_188460 cov_18.4717 63208 63615 invB 0/0 100.0 99.3 NP_461816 (invB) type III secretion system protein InvB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_188460 cov_18.4717 63612 64907 invC 0/0 100.0 99.1 NP_461815 (invC) type III secretion system ATPase InvC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_188460 cov_18.4717 59984 61102 invE 0/0 100.0 99.2 NP_461818 (invE) type III secretion system gatekeeper invE [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_188460 cov_18.4717 57652 58302 invF 0/0 100.0 98.8 NP_461820 (invF) type III secretion system regulatory protein InvF [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_188460 cov_18.4717 58299 59987 invG 0/0 100.0 98.9 NP_461819 (invG) type III secretion system secretin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_188460 cov_18.4717 56752 57195 invH 0/0 100.0 98.9 NP_461821 (invH) type III secretion system pilotin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_188460 cov_18.4717 64885 65328 invI 0/0 100.0 99.5 NP_461814 (invI) type III secretion system stalk protein InvI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_188460 cov_18.4717 65328 66338 invJ 0/0 100.0 99.4 NP_461813 (invJ) type III secretion system needle length regulator InvJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_31 length_52834 cov_20.0808 1896 4622 mgtB 0/0 100.0 98.8 NP_462662 (mgtB) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_31 length_52834 cov_20.0808 4841 5536 mgtC 0/0 100.0 98.4 NP_462663 (mgtC) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_188460 cov_18.4717 170548 171444 mig-14 0/0 100.0 97.2 NP_461708 (mig-14) antimicrobial peptide resistance protein Mig-14 [Mig-14 (VF0395)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_36 length_38948 cov_20.2166 1847 4699 misL 1/15 99.5 97.7 NP_462656 (misL) putative autotransporter [MisL (VF0397)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_188460 cov_18.4717 86550 87149 orgA 0/0 100.0 99.2 NP_461791 (orgA) type III secretion system accessory cytosolic protein OrgA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_188460 cov_18.4717 87106 87796 orgB 1/10 100.0 97.8 NP_461790 (orgB) type III secretion system stator OrgB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_188460 cov_18.4717 87793 88245 orgC 0/0 100.0 98.5 NP_461789 (orgC) type III secretion system effector OrgC [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_184030 cov_15.0903 153556 154431 pipB 0/0 100.0 98.9 NP_460061 (pipB) type III secretion system effector PipB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_188460 cov_18.4717 84054 85232 prgH 0/0 100.0 99.2 NP_461795 (prgH) type III secretion system outer MS ring protein PrgH [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_188460 cov_18.4717 85257 85499 prgI 0/0 100.0 100.0 NP_461794 (prgI) type III secretion system needle filament protein PrgI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_188460 cov_18.4717 85518 85823 prgJ 0/0 100.0 99.7 NP_461793 (prgJ) type III secretion system inner rod protein PrgJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_188460 cov_18.4717 85820 86578 prgK 0/0 100.0 99.6 NP_461792 (prgK) type III secretion system inner MS ring protein PrgK [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_24 length_63246 cov_15.6225 55531 62841 ratB 5/7 100.0 91.0 NP_461449 (ratB) putative outer membrane protein [RatB (VF0399)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_188460 cov_18.4717 70189 70686 sicA 0/0 100.0 99.4 NP_461807 (sicA) chaparone for SipC and SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_188460 cov_18.4717 77494 77886 sicP 0/0 100.0 99.2 NP_461800 (sicP) chaparone for SptP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_184030 cov_15.0903 15304 16314 sifA 0/0 100.0 96.2 NP_460194 (sifA) type III secretion system effector SifA N-terminal SKIP-binding domain C-terminal guanine nucleotide exchange factor activity [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_12 length_115250 cov_14.1838 37257 38207 sifB 0/0 100.0 95.6 NP_460561 (sifB) type III secretion system effector SifB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_24 length_63246 cov_15.6225 46464 48656 sinH 0/0 100.0 95.9 NP_461452 (sinH) intimin-like protein [SinH (VF0400)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_188460 cov_18.4717 74839 76896 sipA/sspA 0/0 100.0 98.3 NP_461803 (sipA/sspA) type III secretion system effector SipA actin polymerizing activity [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_188460 cov_18.4717 70689 72470 sipB/sspB 0/0 100.0 99.5 NP_461806 (sipB/sspB) type III secretion system hydrophilic translocator pore protein SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_188460 cov_18.4717 72498 73727 sipC/sspC 0/0 100.0 99.4 NP_461805 (sipC/sspC) type III secretion system hydrophilic translocator pore protein SipC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_188460 cov_18.4717 73798 74820 sipD 3/11 99.0 90.4 NP_461804 (sipD) type III secretion system hydrophilic translocator needle tip protein SipD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_181425 cov_14.6212 48247 50514 slrP 2/30 98.7 94.7 NP_459778 (slrP) type III secretion system effector SlrP E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_22 length_65103 cov_15.8057 45554 47902 sopA 0/0 100.0 97.4 NP_461011 (sopA) type III secretion system effector SopA E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_184030 cov_15.0903 150964 152649 sopB/sigD 0/0 100.0 98.4 NP_460064 (sopB/sigD) type III secretion system effector SopB phosphoinositide phosphatase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_188460 cov_18.4717 12960 13913 sopD 0/0 100.0 97.9 NP_461866 (sopD) type III secretion system effector SopD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_55 length_10197 cov_16.046 3517 4476 sopD2 0/0 100.0 93.2 NP_459947 (sopD2) type III secretion system effector SopD2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_75 length_1199 cov_12.8787 405 1127 sopE2 0/0 100.0 97.0 NP_460811 (sopE2) type III secretion system effector SopE2 guanine nucleotide exchange factor [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_188460 cov_18.4717 66338 67249 spaO 0/0 100.0 99.5 NP_461812 (spaO) type III secretion system C ring protein SpaO [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_188460 cov_18.4717 67239 67913 spaP 0/0 100.0 98.8 NP_461811 (spaP) type III secretion system minor export apparatus protein SpaP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_188460 cov_18.4717 67939 68199 spaQ 0/0 100.0 99.6 NP_461810 (spaQ) type III secretion system minor export apparatus protein SpaQ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_188460 cov_18.4717 68203 68994 spaR 0/0 100.0 99.0 NP_461809 (spaR) type III secretion system minor export apparatus protein SpaR [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_188460 cov_18.4717 68981 70051 spaS 0/0 100.0 99.2 NP_461808 (spaS) type III secretion system export apparatus switch protein SpaS [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.9174 74109 74510 spiC/ssaB 0/0 100.0 99.2 NP_460358 (spiC/ssaB) type III secretion system protein SsaB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_188460 cov_18.4717 77873 79504 sptP 0/0 100.0 97.5 NP_461799 (sptP) type III secretion system effector SptP tyrosine phosphatase and GTPase-activating protein [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.9174 72614 74107 ssaC 0/0 100.0 98.5 NP_460359 (ssaC) type III secretion system secretin SsaC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.9174 71422 72633 ssaD 0/0 100.0 98.6 NP_460360 (ssaD) type III secretion system outer MS ring protein SsaD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.9174 71172 71414 ssaE 0/0 100.0 98.8 NP_460361 (ssaE) chaperone for sseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.9174 64757 64972 ssaG 0/0 100.0 100.0 NP_460371 (ssaG) type III secretion system needle filament protein SsaG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.9174 64489 64716 ssaH 0/0 100.0 99.6 NP_460372 (ssaH) type III secretion system protein SsaH [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.9174 64229 64477 ssaI 0/0 100.0 98.0 NP_460373 (ssaI) type III secretion system inner rod protein SsaI [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.9174 63483 64232 ssaJ 0/0 100.0 98.1 NP_460374 (ssaJ) type III secretion system inner MS ring protein SsaJ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.9174 62246 62920 ssaK 0/0 100.0 98.8 NP_460376 (ssaK) type III secretion system stator SsaK [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.9174 61264 62280 ssaL 0/0 100.0 98.9 NP_460377 (ssaL) type III secretion system gatekeeper SsaL [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.9174 60838 61206 ssaM 0/0 100.0 97.3 NP_460378 (ssaM) type III secretion system protein SsaM [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.9174 57511 58818 ssaN 1/6 100.0 98.5 NP_460380 (ssaN) type III secretion system ATPase SsaN [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.9174 57131 57508 ssaO 0/0 100.0 98.9 NP_460381 (ssaO) type III secretion system stalk protein SsaO [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.9174 56776 57150 ssaP 0/0 100.0 100.0 NP_460382 (ssaP) type III secretion system needle length regulator SsaP [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.9174 55827 56795 ssaQ 0/0 100.0 98.3 NP_460383 (ssaQ) type III secretion system C ring protein SsaQ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.9174 55112 55759 ssaR 0/0 100.0 98.9 NP_460384 (ssaR) type III secretion system minor export apparatus protein SsaR [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.9174 54849 55115 ssaS 0/0 100.0 99.6 NP_460385 (ssaS) type III secretion system minor export apparatus protein SsaS [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.9174 54069 54848 ssaT 0/0 100.0 97.6 NP_460386 (ssaT) type III secretion system minor export apparatus protein SsaT [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.9174 53014 54072 ssaU 0/0 100.0 98.2 NP_460387 (ssaU) type III secretion system export apparatus switch protein SsaU [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.9174 58808 60853 ssaV 0/0 100.0 98.9 NP_460379 (ssaV) type III secretion system major export apparatus protein ssaV [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.9174 69515 69988 sscA 0/0 100.0 97.3 NP_460364 (sscA) chaperone for sseC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.9174 66550 66984 sscB 0/0 100.0 99.5 NP_460368 (sscB) chaperone for sseF [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.9174 70582 70908 sseA 0/0 100.0 99.4 NP_460362 (sseA) chaperone for sseB and sseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.9174 69985 70575 sseB 0/0 100.0 97.5 NP_460363 (sseB) type III secretion system effector SseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.9174 68058 69512 sseC 0/0 100.0 97.2 NP_460365 (sseC) type III secretion system hydrophilic translocator pore protein SseC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.9174 67455 68042 sseD 0/0 100.0 96.8 NP_460366 (sseD) type III secretion system hydrophilic translocator pore protein SseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.9174 67036 67452 sseE 0/0 100.0 99.3 NP_460367 (sseE) type III secretion system effector SseE [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.9174 65752 66534 sseF 0/0 100.0 98.1 NP_460369 (sseF) type III secretion system effector SseF [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_224730 cov_14.9174 65066 65755 sseG 0/0 100.0 97.7 NP_460370 (sseG) type III secretion system effector SseG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_12 length_115250 cov_14.1838 66370 67596 sseJ 0/0 100.0 96.7 NP_460590 (sseJ) type III secretion system effector SseJ glycerophospholipid:cholesterol acyltransferase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_49 length_19293 cov_16.0062 141 1151 sseK1 0/0 100.0 98.9 NP_463026 (sseK1) type III secretion system effector SseK1 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_27 length_59399 cov_15.1793 43063 44016 sseL 0/0 100.0 96.5 NP_461229 (sseL) type III secretion system effector SseL deubiquitinase [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_12 length_115250 cov_14.1838 14608 15240 steA 0/0 100.0 94.2 NP_460542 (steA) type III secretion system effector SteA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_12 length_115250 cov_14.1838 64698 65099 steB 0/0 100.0 95.5 AAL20547 (steB) type III secretion system effector SteB [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_41 length_29783 cov_13.6631 28376 29749 steC 0/0 100.0 94.9 NP_460656 (steC) type III secretion system effector SteC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
MS0498
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_28 length_65386 cov_17.6524 62216 63124 avrA 0/0 100.0 99.5 NP_461786 (avrA) type III secretion system effector AvrA acetyltransferease [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_40 length_38992 cov_17.2665 9987 10529 bcfA 0/0 100.0 99.5 NP_459026 (bcfA) fimbrial subunit [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_40 length_38992 cov_17.2665 9200 9886 bcfB 0/0 100.0 99.6 NP_459027 (bcfB) fimbrial chaparone [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_40 length_38992 cov_17.2665 6574 9195 bcfC 0/0 100.0 98.9 NP_459028 (bcfC) fimbrial usher [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_40 length_38992 cov_17.2665 5566 6573 bcfD 0/0 100.0 98.6 NP_459029 (bcfD) fimbrial adhesin protein [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_40 length_38992 cov_17.2665 5020 5565 bcfE 0/0 100.0 98.2 NP_459030 (bcfE) fimbrial subunit [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_40 length_38992 cov_17.2665 4486 5004 bcfF 0/0 100.0 98.1 NP_459031 (bcfF) fimbrial subunit [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_40 length_38992 cov_17.2665 3789 4520 bcfG 0/0 100.0 98.4 NP_459032 (bcfG) fimbrial chaparone [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_12 length_97993 cov_15.5134 1063 1518 csgA 0/0 100.0 98.7 NP_460115 (csgA) curlin major subunit CsgA [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_12 length_97993 cov_15.5134 566 1021 csgB 0/0 100.0 100.0 NP_460114 (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_12 length_97993 cov_15.5134 1580 1906 csgC 0/0 100.0 100.0 NP_460116 (csgC) curli assembly protein CsgC [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_84 length_8172 cov_16.6145 95 745 csgD 0/0 100.0 99.2 NP_460113 (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_84 length_8172 cov_16.6145 750 1145 csgE 0/0 100.0 100.0 NP_460112 (csgE) curli production assembly/transport protein CsgE [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_84 length_8172 cov_16.6145 1172 1588 csgF 0/0 100.0 99.8 NP_460111 (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_84 length_8172 cov_16.6145 1615 2448 csgG 0/0 100.0 99.6 NP_460110 (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_53 length_28857 cov_15.7158 22945 23637 fimC 0/0 100.0 98.7 NP_459540 (fimC) chaperone protein FimC [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_53 length_28857 cov_15.7158 23668 26280 fimD 0/0 100.0 98.9 NP_459541 (fimD) usher protein FimD [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_53 length_28857 cov_15.7158 27312 27830 fimF 0/0 100.0 98.3 NP_459543 (fimF) type I fimbriae adaptor protein FimF [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_53 length_28857 cov_15.7158 26295 27302 fimH 0/0 100.0 97.9 NP_459542 (fimH) type I fimbriae minor fimbrial subunit FimH adhesin [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_53 length_28857 cov_15.7158 22368 22901 fimI 0/0 100.0 99.1 NP_459539 (fimI) fimbrial protein internal segment [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_47 length_31672 cov_17.482 25195 27252 invA 0/0 100.0 99.6 NP_461817 (invA) type III secretion system major export apparatus protein InvA [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_47 length_31672 cov_17.482 24764 25171 invB 0/0 100.0 99.3 NP_461816 (invB) type III secretion system protein InvB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_47 length_31672 cov_17.482 23472 24767 invC 0/0 100.0 99.4 NP_461815 (invC) type III secretion system ATPase InvC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_47 length_31672 cov_17.482 27277 28395 invE 0/0 100.0 99.7 NP_461818 (invE) type III secretion system gatekeeper invE [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_47 length_31672 cov_17.482 30077 30727 invF 0/0 100.0 99.7 NP_461820 (invF) type III secretion system regulatory protein InvF [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_47 length_31672 cov_17.482 28392 30080 invG 0/0 100.0 99.5 NP_461819 (invG) type III secretion system secretin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_47 length_31672 cov_17.482 31185 31628 invH 0/0 100.0 99.3 NP_461821 (invH) type III secretion system pilotin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_47 length_31672 cov_17.482 23051 23494 invI 0/0 100.0 99.3 NP_461814 (invI) type III secretion system stalk protein InvI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_47 length_31672 cov_17.482 22041 23051 invJ 0/0 100.0 99.3 NP_461813 (invJ) type III secretion system needle length regulator InvJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_221410 cov_19.5443 86 622 lpfA 0/0 100.0 96.8 NP_462541 (lpfA) long polar fimbria protein LpfA [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_221410 cov_19.5443 706 1404 lpfB 0/0 100.0 98.7 NP_462540 (lpfB) long polar fimbrial chaperone protein LpfB [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_221410 cov_19.5443 1427 3955 lpfC 0/0 100.0 98.5 NP_462539 (lpfC) long polar fimbrial usher protein LpfC [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_221410 cov_19.5443 5043 5570 lpfE 0/0 100.0 99.2 NP_462537 (lpfE) long polar fimbrial minor subunit LpfE adhesin [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_107697 cov_21.0948 62295 65021 mgtB 0/0 100.0 98.8 NP_462662 (mgtB) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_107697 cov_21.0948 65241 65936 mgtC 0/0 100.0 99.0 NP_462663 (mgtC) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_30 length_59122 cov_17.1178 17240 18136 mig-14 0/0 100.0 97.7 NP_461708 (mig-14) antimicrobial peptide resistance protein Mig-14 [Mig-14 (VF0395)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_107697 cov_21.0948 55515 58382 misL 3/30 99.5 97.4 NP_462656 (misL) putative autotransporter [MisL (VF0397)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_47 length_31672 cov_17.482 1221 1820 orgA 0/0 100.0 99.5 NP_461791 (orgA) type III secretion system accessory cytosolic protein OrgA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_47 length_31672 cov_17.482 574 1264 orgB 1/10 100.0 97.5 NP_461790 (orgB) type III secretion system stator OrgB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_47 length_31672 cov_17.482 125 577 orgC 0/0 100.0 98.0 NP_461789 (orgC) type III secretion system effector OrgC [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_38 length_40142 cov_14.9506 27 902 pipB 0/0 100.0 98.7 NP_460061 (pipB) type III secretion system effector PipB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_30 length_59122 cov_17.1178 19877 20929 pipB2 0/0 100.0 93.9 NP_461706 (pipB2) type III secretion system effector PipB3 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_47 length_31672 cov_17.482 3138 4316 prgH 0/0 100.0 99.3 NP_461795 (prgH) type III secretion system outer MS ring protein PrgH [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_47 length_31672 cov_17.482 2871 3113 prgI 0/0 100.0 98.8 NP_461794 (prgI) type III secretion system needle filament protein PrgI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_47 length_31672 cov_17.482 2547 2852 prgJ 0/0 100.0 99.7 NP_461793 (prgJ) type III secretion system inner rod protein PrgJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_47 length_31672 cov_17.482 1792 2550 prgK 0/0 100.0 99.5 NP_461792 (prgK) type III secretion system inner MS ring protein PrgK [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_47 length_31672 cov_17.482 17693 18190 sicA 0/0 100.0 99.4 NP_461807 (sicA) chaparone for SipC and SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_47 length_31672 cov_17.482 10484 10876 sicP 0/0 100.0 99.5 NP_461800 (sicP) chaparone for SptP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_12 length_97993 cov_15.5134 79280 80290 sifA 0/0 100.0 96.1 NP_460194 (sifA) type III secretion system effector SifA N-terminal SKIP-binding domain C-terminal guanine nucleotide exchange factor activity [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_27 length_65470 cov_13.5488 37250 38200 sifB 0/0 100.0 95.7 NP_460561 (sifB) type III secretion system effector SifB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_31 length_56892 cov_19.3255 54570 56762 sinH 0/0 100.0 97.6 NP_461452 (sinH) intimin-like protein [SinH (VF0400)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_47 length_31672 cov_17.482 11474 13531 sipA/sspA 0/0 100.0 99.2 NP_461803 (sipA/sspA) type III secretion system effector SipA actin polymerizing activity [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_47 length_31672 cov_17.482 15909 17690 sipB/sspB 0/0 100.0 99.5 NP_461806 (sipB/sspB) type III secretion system hydrophilic translocator pore protein SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_47 length_31672 cov_17.482 14652 15881 sipC/sspC 0/0 100.0 99.7 NP_461805 (sipC/sspC) type III secretion system hydrophilic translocator pore protein SipC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_47 length_31672 cov_17.482 13550 14581 sipD 0/0 100.0 98.7 NP_461804 (sipD) type III secretion system hydrophilic translocator needle tip protein SipD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_29 length_59659 cov_15.7924 22818 25085 slrP 1/30 98.7 95.3 NP_459778 (slrP) type III secretion system effector SlrP E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_93408 cov_15.3063 72591 74939 sopA 0/0 100.0 98.1 NP_461011 (sopA) type III secretion system effector SopA E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_77 length_11117 cov_13.6384 1269 2954 sopB/sigD 0/0 100.0 97.6 NP_460064 (sopB/sigD) type III secretion system effector SopB phosphoinositide phosphatase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_149413 cov_18.3288 109838 110791 sopD 0/0 100.0 98.2 NP_461866 (sopD) type III secretion system effector SopD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_37 length_42934 cov_15.5373 36233 37192 sopD2 0/0 100.0 92.6 NP_459947 (sopD2) type III secretion system effector SopD2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_24 length_70283 cov_13.578 340 1062 sopE2 0/0 100.0 96.7 NP_460811 (sopE2) type III secretion system effector SopE2 guanine nucleotide exchange factor [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_47 length_31672 cov_17.482 21130 22041 spaO 0/0 100.0 99.5 NP_461812 (spaO) type III secretion system C ring protein SpaO [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_47 length_31672 cov_17.482 20466 21140 spaP 0/0 100.0 99.4 NP_461811 (spaP) type III secretion system minor export apparatus protein SpaP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_47 length_31672 cov_17.482 20180 20440 spaQ 0/0 100.0 99.2 NP_461810 (spaQ) type III secretion system minor export apparatus protein SpaQ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_47 length_31672 cov_17.482 19385 20176 spaR 0/0 100.0 99.6 NP_461809 (spaR) type III secretion system minor export apparatus protein SpaR [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_47 length_31672 cov_17.482 18328 19398 spaS 0/0 100.0 99.9 NP_461808 (spaS) type III secretion system export apparatus switch protein SpaS [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_54 length_28146 cov_13.2336 20079 20480 spiC/ssaB 0/0 100.0 99.8 NP_460358 (spiC/ssaB) type III secretion system protein SsaB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_47 length_31672 cov_17.482 8866 10497 sptP 0/0 100.0 98.4 NP_461799 (sptP) type III secretion system effector SptP tyrosine phosphatase and GTPase-activating protein [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_54 length_28146 cov_13.2336 20482 21975 ssaC 0/0 100.0 98.7 NP_460359 (ssaC) type III secretion system secretin SsaC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_54 length_28146 cov_13.2336 21956 23167 ssaD 0/0 100.0 98.7 NP_460360 (ssaD) type III secretion system outer MS ring protein SsaD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_54 length_28146 cov_13.2336 23175 23417 ssaE 0/0 100.0 98.8 NP_460361 (ssaE) chaperone for sseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_146295 cov_14.287 1454 1669 ssaG 0/0 100.0 99.1 NP_460371 (ssaG) type III secretion system needle filament protein SsaG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_146295 cov_14.287 1710 1937 ssaH 0/0 100.0 99.1 NP_460372 (ssaH) type III secretion system protein SsaH [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_146295 cov_14.287 1949 2197 ssaI 0/0 100.0 98.4 NP_460373 (ssaI) type III secretion system inner rod protein SsaI [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_146295 cov_14.287 2194 2943 ssaJ 0/0 100.0 98.5 NP_460374 (ssaJ) type III secretion system inner MS ring protein SsaJ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_146295 cov_14.287 3506 4180 ssaK 0/0 100.0 98.8 NP_460376 (ssaK) type III secretion system stator SsaK [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_146295 cov_14.287 4146 5162 ssaL 0/0 100.0 99.0 NP_460377 (ssaL) type III secretion system gatekeeper SsaL [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_146295 cov_14.287 5220 5588 ssaM 0/0 100.0 98.6 NP_460378 (ssaM) type III secretion system protein SsaM [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_146295 cov_14.287 7608 8909 ssaN 0/0 100.0 98.5 NP_460380 (ssaN) type III secretion system ATPase SsaN [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_146295 cov_14.287 8912 9289 ssaO 0/0 100.0 99.2 NP_460381 (ssaO) type III secretion system stalk protein SsaO [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_146295 cov_14.287 9270 9644 ssaP 0/0 100.0 98.7 NP_460382 (ssaP) type III secretion system needle length regulator SsaP [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_146295 cov_14.287 9625 10593 ssaQ 0/0 100.0 98.6 NP_460383 (ssaQ) type III secretion system C ring protein SsaQ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_146295 cov_14.287 10661 11308 ssaR 0/0 100.0 99.5 NP_460384 (ssaR) type III secretion system minor export apparatus protein SsaR [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_146295 cov_14.287 11305 11571 ssaS 0/0 100.0 100.0 NP_460385 (ssaS) type III secretion system minor export apparatus protein SsaS [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_146295 cov_14.287 11572 12351 ssaT 0/0 100.0 98.1 NP_460386 (ssaT) type III secretion system minor export apparatus protein SsaT [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_146295 cov_14.287 12348 13406 ssaU 0/0 100.0 97.7 NP_460387 (ssaU) type III secretion system export apparatus switch protein SsaU [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_146295 cov_14.287 5573 7618 ssaV 0/0 100.0 99.1 NP_460379 (ssaV) type III secretion system major export apparatus protein ssaV [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_54 length_28146 cov_13.2336 24600 25073 sscA 0/0 100.0 97.7 NP_460364 (sscA) chaperone for sseC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_54 length_28146 cov_13.2336 27604 28038 sscB 0/0 100.0 99.8 NP_460368 (sscB) chaperone for sseF [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_54 length_28146 cov_13.2336 23680 24006 sseA 0/0 100.0 98.8 NP_460362 (sseA) chaperone for sseB and sseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_54 length_28146 cov_13.2336 24013 24603 sseB 0/0 100.0 96.6 NP_460363 (sseB) type III secretion system effector SseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_54 length_28146 cov_13.2336 25076 26530 sseC 0/0 100.0 95.7 NP_460365 (sseC) type III secretion system hydrophilic translocator pore protein SseC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_54 length_28146 cov_13.2336 26546 27133 sseD 0/0 100.0 95.4 NP_460366 (sseD) type III secretion system hydrophilic translocator pore protein SseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_54 length_28146 cov_13.2336 27136 27552 sseE 0/0 100.0 98.3 NP_460367 (sseE) type III secretion system effector SseE [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_146295 cov_14.287 672 1361 sseG 0/0 100.0 97.7 NP_460370 (sseG) type III secretion system effector SseG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_59 length_25477 cov_12.8437 23348 24574 sseJ 0/0 100.0 96.4 NP_460590 (sseJ) type III secretion system effector SseJ glycerophospholipid:cholesterol acyltransferase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_32563 cov_20.8608 13692 14702 sseK1 0/0 100.0 99.2 NP_463026 (sseK1) type III secretion system effector SseK1 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_21 length_81721 cov_15.305 77105 78151 sseK2 0/0 100.0 99.1 NP_461081 (sseK2) type III secretion system effector SseK2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_27 length_65470 cov_13.5488 14577 15209 steA 0/0 100.0 97.5 NP_460542 (steA) type III secretion system effector SteA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_27 length_65470 cov_13.5488 64690 65091 steB 0/0 100.0 97.0 AAL20547 (steB) type III secretion system effector SteB [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
MS0499
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_24 length_65303 cov_20.364 2259 3167 avrA 0/0 100.0 99.5 NP_461786 (avrA) type III secretion system effector AvrA acetyltransferease [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_8 length_161343 cov_21.58 121399 121941 bcfA 0/0 100.0 99.5 NP_459026 (bcfA) fimbrial subunit [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_8 length_161343 cov_21.58 122042 122728 bcfB 0/0 100.0 99.6 NP_459027 (bcfB) fimbrial chaparone [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_8 length_161343 cov_21.58 122733 125354 bcfC 0/0 100.0 98.9 NP_459028 (bcfC) fimbrial usher [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_8 length_161343 cov_21.58 125355 126362 bcfD 0/0 100.0 98.6 NP_459029 (bcfD) fimbrial adhesin protein [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_8 length_161343 cov_21.58 126363 126908 bcfE 0/0 100.0 98.2 NP_459030 (bcfE) fimbrial subunit [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_8 length_161343 cov_21.58 126924 127442 bcfF 0/0 100.0 98.1 NP_459031 (bcfF) fimbrial subunit [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_8 length_161343 cov_21.58 127408 128139 bcfG 0/0 100.0 98.4 NP_459032 (bcfG) fimbrial chaparone [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_236778 cov_16.7821 179320 179775 csgA 0/0 100.0 98.7 NP_460115 (csgA) curlin major subunit CsgA [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_236778 cov_16.7821 179817 180272 csgB 0/0 100.0 100.0 NP_460114 (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_236778 cov_16.7821 178932 179258 csgC 0/0 100.0 100.0 NP_460116 (csgC) curli assembly protein CsgC [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_236778 cov_16.7821 181027 181677 csgD 0/0 100.0 99.2 NP_460113 (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_236778 cov_16.7821 181682 182077 csgE 0/0 100.0 100.0 NP_460112 (csgE) curli production assembly/transport protein CsgE [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_236778 cov_16.7821 182104 182520 csgF 0/0 100.0 99.8 NP_460111 (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_236778 cov_16.7821 182547 183380 csgG 0/0 100.0 99.6 NP_460110 (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403701 cov_18.9992 134024 134716 fimC 0/0 100.0 98.7 NP_459540 (fimC) chaperone protein FimC [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403701 cov_18.9992 131381 133993 fimD 0/0 100.0 98.9 NP_459541 (fimD) usher protein FimD [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403701 cov_18.9992 129831 130349 fimF 0/0 100.0 98.3 NP_459543 (fimF) type I fimbriae adaptor protein FimF [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403701 cov_18.9992 130359 131366 fimH 0/0 100.0 97.9 NP_459542 (fimH) type I fimbriae minor fimbrial subunit FimH adhesin [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403701 cov_18.9992 134760 135293 fimI 0/0 100.0 99.1 NP_459539 (fimI) fimbrial protein internal segment [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.6667 61853 63910 invA 0/0 100.0 99.6 NP_461817 (invA) type III secretion system major export apparatus protein InvA [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.6667 63934 64341 invB 0/0 100.0 99.3 NP_461816 (invB) type III secretion system protein InvB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.6667 64338 65633 invC 0/0 100.0 99.4 NP_461815 (invC) type III secretion system ATPase InvC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.6667 60710 61828 invE 0/0 100.0 99.7 NP_461818 (invE) type III secretion system gatekeeper invE [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.6667 58378 59028 invF 0/0 100.0 99.7 NP_461820 (invF) type III secretion system regulatory protein InvF [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.6667 59025 60713 invG 0/0 100.0 99.5 NP_461819 (invG) type III secretion system secretin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.6667 57477 57920 invH 0/0 100.0 99.3 NP_461821 (invH) type III secretion system pilotin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.6667 65611 66054 invI 0/0 100.0 99.3 NP_461814 (invI) type III secretion system stalk protein InvI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.6667 66054 67064 invJ 0/0 100.0 99.3 NP_461813 (invJ) type III secretion system needle length regulator InvJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_414408 cov_22.6359 192952 193488 lpfA 0/0 100.0 96.8 NP_462541 (lpfA) long polar fimbria protein LpfA [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_414408 cov_22.6359 193572 194270 lpfB 0/0 100.0 98.7 NP_462540 (lpfB) long polar fimbrial chaperone protein LpfB [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_414408 cov_22.6359 194293 196821 lpfC 0/0 100.0 98.5 NP_462539 (lpfC) long polar fimbrial usher protein LpfC [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_414408 cov_22.6359 197909 198436 lpfE 0/0 100.0 99.2 NP_462537 (lpfE) long polar fimbrial minor subunit LpfE adhesin [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_414408 cov_22.6359 42586 45312 mgtB 0/0 100.0 98.8 NP_462662 (mgtB) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_414408 cov_22.6359 41671 42366 mgtC 0/0 100.0 99.0 NP_462663 (mgtC) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_38 length_34757 cov_18.7664 17496 18392 mig-14 0/0 100.0 97.7 NP_461708 (mig-14) antimicrobial peptide resistance protein Mig-14 [Mig-14 (VF0395)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_414408 cov_22.6359 49225 52092 misL 3/30 99.5 97.4 NP_462656 (misL) putative autotransporter [MisL (VF0397)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.6667 87285 87884 orgA 0/0 100.0 99.5 NP_461791 (orgA) type III secretion system accessory cytosolic protein OrgA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.6667 87841 88531 orgB 1/10 100.0 97.5 NP_461790 (orgB) type III secretion system stator OrgB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.6667 88528 88980 orgC 0/0 100.0 98.0 NP_461789 (orgC) type III secretion system effector OrgC [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_18 length_79532 cov_16.1545 39197 40072 pipB 0/0 100.0 98.7 NP_460061 (pipB) type III secretion system effector PipB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_38 length_34757 cov_18.7664 20133 21185 pipB2 0/0 100.0 93.9 NP_461706 (pipB2) type III secretion system effector PipB3 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.6667 84789 85967 prgH 0/0 100.0 99.3 NP_461795 (prgH) type III secretion system outer MS ring protein PrgH [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.6667 85992 86234 prgI 0/0 100.0 98.8 NP_461794 (prgI) type III secretion system needle filament protein PrgI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.6667 86253 86558 prgJ 0/0 100.0 99.7 NP_461793 (prgJ) type III secretion system inner rod protein PrgJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.6667 86555 87313 prgK 0/0 100.0 99.5 NP_461792 (prgK) type III secretion system inner MS ring protein PrgK [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.6667 70915 71412 sicA 0/0 100.0 99.4 NP_461807 (sicA) chaparone for SipC and SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.6667 78229 78621 sicP 0/0 100.0 99.5 NP_461800 (sicP) chaparone for SptP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_236778 cov_16.7821 100548 101558 sifA 0/0 100.0 96.1 NP_460194 (sifA) type III secretion system effector SifA N-terminal SKIP-binding domain C-terminal guanine nucleotide exchange factor activity [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_224057 cov_15.0684 102521 103471 sifB 0/0 100.0 95.7 NP_460561 (sifB) type III secretion system effector SifB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_266182 cov_18.7292 263900 266092 sinH 0/0 100.0 97.6 NP_461452 (sinH) intimin-like protein [SinH (VF0400)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.6667 75574 77631 sipA/sspA 0/0 100.0 99.2 NP_461803 (sipA/sspA) type III secretion system effector SipA actin polymerizing activity [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.6667 71415 73196 sipB/sspB 0/0 100.0 99.5 NP_461806 (sipB/sspB) type III secretion system hydrophilic translocator pore protein SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.6667 73224 74453 sipC/sspC 0/0 100.0 99.7 NP_461805 (sipC/sspC) type III secretion system hydrophilic translocator pore protein SipC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.6667 74524 75555 sipD 0/0 100.0 98.7 NP_461804 (sipD) type III secretion system hydrophilic translocator needle tip protein SipD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_28 length_59659 cov_16.8412 22818 25085 slrP 1/30 98.7 95.3 NP_459778 (slrP) type III secretion system effector SlrP E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_32 length_50055 cov_17.0223 22753 25101 sopA 0/0 100.0 98.1 NP_461011 (sopA) type III secretion system effector SopA E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_18 length_79532 cov_16.1545 41411 43096 sopB/sigD 0/0 100.0 97.6 NP_460064 (sopB/sigD) type III secretion system effector SopB phosphoinositide phosphatase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.6667 13307 14260 sopD 0/0 100.0 98.2 NP_461866 (sopD) type III secretion system effector SopD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_34 length_42991 cov_17.1474 36290 37249 sopD2 0/0 100.0 92.6 NP_459947 (sopD2) type III secretion system effector SopD2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_162718 cov_15.3676 68344 69066 sopE2 0/0 100.0 96.7 NP_460811 (sopE2) type III secretion system effector SopE2 guanine nucleotide exchange factor [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.6667 67064 67975 spaO 0/0 100.0 99.5 NP_461812 (spaO) type III secretion system C ring protein SpaO [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.6667 67965 68639 spaP 0/0 100.0 99.4 NP_461811 (spaP) type III secretion system minor export apparatus protein SpaP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.6667 68665 68925 spaQ 0/0 100.0 99.2 NP_461810 (spaQ) type III secretion system minor export apparatus protein SpaQ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.6667 68929 69720 spaR 0/0 100.0 99.6 NP_461809 (spaR) type III secretion system minor export apparatus protein SpaR [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.6667 69707 70777 spaS 0/0 100.0 99.9 NP_461808 (spaS) type III secretion system export apparatus switch protein SpaS [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_21 length_77226 cov_15.7157 7627 8028 spiC/ssaB 0/0 100.0 99.8 NP_460358 (spiC/ssaB) type III secretion system protein SsaB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_89140 cov_19.6667 78608 80239 sptP 0/0 100.0 98.4 NP_461799 (sptP) type III secretion system effector SptP tyrosine phosphatase and GTPase-activating protein [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_21 length_77226 cov_15.7157 6132 7625 ssaC 0/0 100.0 98.7 NP_460359 (ssaC) type III secretion system secretin SsaC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_21 length_77226 cov_15.7157 4940 6151 ssaD 0/0 100.0 98.7 NP_460360 (ssaD) type III secretion system outer MS ring protein SsaD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_21 length_77226 cov_15.7157 4690 4932 ssaE 0/0 100.0 98.8 NP_460361 (ssaE) chaperone for sseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_26 length_62916 cov_16.1028 61247 61462 ssaG 0/0 100.0 99.1 NP_460371 (ssaG) type III secretion system needle filament protein SsaG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_26 length_62916 cov_16.1028 60979 61206 ssaH 0/0 100.0 99.1 NP_460372 (ssaH) type III secretion system protein SsaH [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_26 length_62916 cov_16.1028 60719 60967 ssaI 0/0 100.0 98.4 NP_460373 (ssaI) type III secretion system inner rod protein SsaI [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_26 length_62916 cov_16.1028 59973 60722 ssaJ 0/0 100.0 98.5 NP_460374 (ssaJ) type III secretion system inner MS ring protein SsaJ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_26 length_62916 cov_16.1028 58736 59410 ssaK 0/0 100.0 98.8 NP_460376 (ssaK) type III secretion system stator SsaK [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_26 length_62916 cov_16.1028 57754 58770 ssaL 0/0 100.0 99.0 NP_460377 (ssaL) type III secretion system gatekeeper SsaL [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_26 length_62916 cov_16.1028 57328 57696 ssaM 0/0 100.0 98.6 NP_460378 (ssaM) type III secretion system protein SsaM [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_26 length_62916 cov_16.1028 54007 55308 ssaN 0/0 100.0 98.5 NP_460380 (ssaN) type III secretion system ATPase SsaN [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_26 length_62916 cov_16.1028 53627 54004 ssaO 0/0 100.0 99.2 NP_460381 (ssaO) type III secretion system stalk protein SsaO [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_26 length_62916 cov_16.1028 53272 53646 ssaP 0/0 100.0 98.7 NP_460382 (ssaP) type III secretion system needle length regulator SsaP [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_26 length_62916 cov_16.1028 52323 53291 ssaQ 0/0 100.0 98.6 NP_460383 (ssaQ) type III secretion system C ring protein SsaQ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_26 length_62916 cov_16.1028 51608 52255 ssaR 0/0 100.0 99.5 NP_460384 (ssaR) type III secretion system minor export apparatus protein SsaR [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_26 length_62916 cov_16.1028 51345 51611 ssaS 0/0 100.0 100.0 NP_460385 (ssaS) type III secretion system minor export apparatus protein SsaS [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_26 length_62916 cov_16.1028 50565 51344 ssaT 0/0 100.0 98.1 NP_460386 (ssaT) type III secretion system minor export apparatus protein SsaT [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_26 length_62916 cov_16.1028 49510 50568 ssaU 0/0 100.0 97.7 NP_460387 (ssaU) type III secretion system export apparatus switch protein SsaU [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_26 length_62916 cov_16.1028 55298 57343 ssaV 0/0 100.0 99.1 NP_460379 (ssaV) type III secretion system major export apparatus protein ssaV [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_21 length_77226 cov_15.7157 3034 3507 sscA 0/0 100.0 97.7 NP_460364 (sscA) chaperone for sseC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_21 length_77226 cov_15.7157 69 503 sscB 0/0 100.0 99.8 NP_460368 (sscB) chaperone for sseF [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_21 length_77226 cov_15.7157 4101 4427 sseA 0/0 100.0 98.8 NP_460362 (sseA) chaperone for sseB and sseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_21 length_77226 cov_15.7157 3504 4094 sseB 0/0 100.0 96.6 NP_460363 (sseB) type III secretion system effector SseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_21 length_77226 cov_15.7157 1577 3031 sseC 0/0 100.0 95.7 NP_460365 (sseC) type III secretion system hydrophilic translocator pore protein SseC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_21 length_77226 cov_15.7157 974 1561 sseD 0/0 100.0 95.4 NP_460366 (sseD) type III secretion system hydrophilic translocator pore protein SseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_21 length_77226 cov_15.7157 555 971 sseE 0/0 100.0 98.3 NP_460367 (sseE) type III secretion system effector SseE [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_26 length_62916 cov_16.1028 61555 62244 sseG 0/0 100.0 97.7 NP_460370 (sseG) type III secretion system effector SseG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_224057 cov_15.0684 73133 74359 sseJ 0/0 100.0 96.4 NP_460590 (sseJ) type III secretion system effector SseJ glycerophospholipid:cholesterol acyltransferase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_54 length_19022 cov_21.3638 151 1161 sseK1 0/0 100.0 99.2 NP_463026 (sseK1) type III secretion system effector SseK1 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_112967 cov_16.7429 108026 109072 sseK2 0/0 100.0 99.1 NP_461081 (sseK2) type III secretion system effector SseK2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_224057 cov_15.0684 125512 126144 steA 0/0 100.0 97.5 NP_460542 (steA) type III secretion system effector SteA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_224057 cov_15.0684 75630 76031 steB 0/0 100.0 97.0 AAL20547 (steB) type III secretion system effector SteB [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_224057 cov_15.0684 43 1416 steC 0/0 100.0 95.8 NP_460656 (steC) type III secretion system effector SteC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
MS0500
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_15 length_144214 cov_21.7517 140848 141756 avrA 0/0 100.0 99.7 NP_461786 (avrA) type III secretion system effector AvrA acetyltransferease [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_174151 cov_23.2331 134896 135438 bcfA 0/0 100.0 99.6 NP_459026 (bcfA) fimbrial subunit [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_174151 cov_23.2331 135539 136225 bcfB 0/0 100.0 99.7 NP_459027 (bcfB) fimbrial chaparone [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_174151 cov_23.2331 136230 138851 bcfC 0/0 100.0 99.2 NP_459028 (bcfC) fimbrial usher [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_174151 cov_23.2331 138852 139859 bcfD 0/0 100.0 99.2 NP_459029 (bcfD) fimbrial adhesin protein [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_174151 cov_23.2331 139860 140405 bcfE 0/0 100.0 98.3 NP_459030 (bcfE) fimbrial subunit [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_174151 cov_23.2331 140421 140939 bcfF 0/0 100.0 99.8 NP_459031 (bcfF) fimbrial subunit [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_174151 cov_23.2331 140905 141636 bcfG 0/0 100.0 99.3 NP_459032 (bcfG) fimbrial chaparone [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_8 length_189929 cov_19.4046 188521 188976 csgA 0/0 100.0 98.9 NP_460115 (csgA) curlin major subunit CsgA [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_8 length_189929 cov_19.4046 189018 189473 csgB 0/0 100.0 99.6 NP_460114 (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_8 length_189929 cov_19.4046 188133 188459 csgC 0/0 100.0 100.0 NP_460116 (csgC) curli assembly protein CsgC [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_26 length_55592 cov_21.612 300 950 csgD 0/0 100.0 99.7 NP_460113 (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_26 length_55592 cov_21.612 955 1350 csgE 0/0 100.0 100.0 NP_460112 (csgE) curli production assembly/transport protein CsgE [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_26 length_55592 cov_21.612 1377 1793 csgF 0/0 100.0 100.0 NP_460111 (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_26 length_55592 cov_21.612 1820 2653 csgG 0/0 100.0 99.6 NP_460110 (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_439190 cov_21.4436 285612 286304 fimC 0/0 100.0 99.0 NP_459540 (fimC) chaperone protein FimC [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_439190 cov_21.4436 286335 288947 fimD 0/0 100.0 99.0 NP_459541 (fimD) usher protein FimD [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_439190 cov_21.4436 289979 290497 fimF 0/0 100.0 99.2 NP_459543 (fimF) type I fimbriae adaptor protein FimF [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_439190 cov_21.4436 288962 289969 fimH 0/0 100.0 98.2 NP_459542 (fimH) type I fimbriae minor fimbrial subunit FimH adhesin [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_439190 cov_21.4436 285035 285568 fimI 0/0 100.0 98.3 NP_459539 (fimI) fimbrial protein internal segment [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_33 length_33794 cov_21.3072 6562 8619 invA 0/0 100.0 99.4 NP_461817 (invA) type III secretion system major export apparatus protein InvA [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_33 length_33794 cov_21.3072 8643 9050 invB 0/0 100.0 99.0 NP_461816 (invB) type III secretion system protein InvB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_33 length_33794 cov_21.3072 9047 10342 invC 0/0 100.0 99.8 NP_461815 (invC) type III secretion system ATPase InvC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_33 length_33794 cov_21.3072 5419 6537 invE 0/0 100.0 99.7 NP_461818 (invE) type III secretion system gatekeeper invE [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_33 length_33794 cov_21.3072 3087 3737 invF 0/0 100.0 100.0 NP_461820 (invF) type III secretion system regulatory protein InvF [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_33 length_33794 cov_21.3072 3734 5422 invG 0/0 100.0 99.3 NP_461819 (invG) type III secretion system secretin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_33 length_33794 cov_21.3072 2188 2631 invH 0/0 100.0 98.7 NP_461821 (invH) type III secretion system pilotin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_33 length_33794 cov_21.3072 10320 10763 invI 0/0 100.0 100.0 NP_461814 (invI) type III secretion system stalk protein InvI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_33 length_33794 cov_21.3072 10763 11773 invJ 0/0 100.0 99.2 NP_461813 (invJ) type III secretion system needle length regulator InvJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_228058 cov_24.3475 102 638 lpfA 0/0 100.0 99.8 NP_462541 (lpfA) long polar fimbria protein LpfA [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_228058 cov_24.3475 723 1421 lpfB 0/0 100.0 99.9 NP_462540 (lpfB) long polar fimbrial chaperone protein LpfB [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_228058 cov_24.3475 1444 3972 lpfC 0/0 100.0 99.2 NP_462539 (lpfC) long polar fimbrial usher protein LpfC [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_228058 cov_24.3475 3990 5069 lpfD 0/0 100.0 99.6 NP_462538 (lpfD) long polar fimbrial protein LpfD [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_5 length_228058 cov_24.3475 5075 5602 lpfE 0/0 100.0 99.8 NP_462537 (lpfE) long polar fimbrial minor subunit LpfE adhesin [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_178040 cov_24.3631 132630 135356 mgtB 0/0 100.0 99.0 NP_462662 (mgtB) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_178040 cov_24.3631 135576 136271 mgtC 0/0 100.0 98.6 NP_462663 (mgtC) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_144214 cov_21.7517 60674 61570 mig-14 0/0 100.0 98.1 NP_461708 (mig-14) antimicrobial peptide resistance protein Mig-14 [Mig-14 (VF0395)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_178040 cov_24.3631 125910 128777 misL 0/0 100.0 99.4 NP_462656 (misL) putative autotransporter [MisL (VF0397)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_33 length_33794 cov_21.3072 31996 32595 orgA 0/0 100.0 99.8 NP_461791 (orgA) type III secretion system accessory cytosolic protein OrgA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_33 length_33794 cov_21.3072 32552 33232 orgB 0/0 100.0 99.8 NP_461790 (orgB) type III secretion system stator OrgB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_33 length_33794 cov_21.3072 33229 33681 orgC 0/0 100.0 99.3 NP_461789 (orgC) type III secretion system effector OrgC [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_20 length_89962 cov_18.85 33424 34299 pipB 0/0 100.0 98.6 NP_460061 (pipB) type III secretion system effector PipB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_144214 cov_21.7517 57880 58932 pipB2 0/0 100.0 99.5 NP_461706 (pipB2) type III secretion system effector PipB3 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_33 length_33794 cov_21.3072 29500 30678 prgH 0/0 100.0 99.6 NP_461795 (prgH) type III secretion system outer MS ring protein PrgH [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_33 length_33794 cov_21.3072 30703 30945 prgI 0/0 100.0 100.0 NP_461794 (prgI) type III secretion system needle filament protein PrgI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_33 length_33794 cov_21.3072 30964 31269 prgJ 0/0 100.0 99.0 NP_461793 (prgJ) type III secretion system inner rod protein PrgJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_33 length_33794 cov_21.3072 31266 32024 prgK 0/0 100.0 99.6 NP_461792 (prgK) type III secretion system inner MS ring protein PrgK [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_245609 cov_20.9797 106332 113639 ratB 0/0 100.0 99.0 NP_461449 (ratB) putative outer membrane protein [RatB (VF0399)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_33 length_33794 cov_21.3072 15624 16121 sicA 0/0 100.0 99.6 NP_461807 (sicA) chaparone for SipC and SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_33 length_33794 cov_21.3072 22938 23330 sicP 0/0 100.0 99.8 NP_461800 (sicP) chaparone for SptP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_8 length_189929 cov_19.4046 109766 110776 sifA 0/0 100.0 99.8 NP_460194 (sifA) type III secretion system effector SifA N-terminal SKIP-binding domain C-terminal guanine nucleotide exchange factor activity [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.4156 65745 66695 sifB 0/0 100.0 97.7 NP_460561 (sifB) type III secretion system effector SifB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_33 length_33794 cov_21.3072 20283 22340 sipA/sspA 0/0 100.0 99.8 NP_461803 (sipA/sspA) type III secretion system effector SipA actin polymerizing activity [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_33 length_33794 cov_21.3072 16124 17905 sipB/sspB 0/0 100.0 99.7 NP_461806 (sipB/sspB) type III secretion system hydrophilic translocator pore protein SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_33 length_33794 cov_21.3072 17933 19162 sipC/sspC 0/0 100.0 99.5 NP_461805 (sipC/sspC) type III secretion system hydrophilic translocator pore protein SipC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_33 length_33794 cov_21.3072 19233 20264 sipD 0/0 100.0 99.8 NP_461804 (sipD) type III secretion system hydrophilic translocator needle tip protein SipD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_23 length_65031 cov_19.5225 33913 36167 slrP 3/43 98.1 96.3 NP_459778 (slrP) type III secretion system effector SlrP E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_11 length_170699 cov_18.423 45563 46096 sodCI 0/0 100.0 100.0 NP_460019 (sodCI) Gifsy-2 prophage: superoxide dismutase precursor (Cu-Zn) [SodCI (VF0109)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_197194 cov_20.3343 194356 196704 sopA 0/0 100.0 99.2 NP_461011 (sopA) type III secretion system effector SopA E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_20 length_89962 cov_18.85 35205 36890 sopB/sigD 0/0 100.0 99.6 NP_460064 (sopB/sigD) type III secretion system effector SopB phosphoinositide phosphatase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_18 length_109850 cov_22.9478 108826 109779 sopD 0/0 100.0 98.1 NP_461866 (sopD) type III secretion system effector SopD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_12 length_163604 cov_19.6098 111954 112913 sopD2 0/0 100.0 99.4 NP_459947 (sopD2) type III secretion system effector SopD2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_11 length_170699 cov_18.423 20092 20814 sopE2 0/0 100.0 99.9 NP_460811 (sopE2) type III secretion system effector SopE2 guanine nucleotide exchange factor [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_33 length_33794 cov_21.3072 11773 12684 spaO 0/0 100.0 98.9 NP_461812 (spaO) type III secretion system C ring protein SpaO [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_33 length_33794 cov_21.3072 12674 13348 spaP 0/0 100.0 99.0 NP_461811 (spaP) type III secretion system minor export apparatus protein SpaP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_33 length_33794 cov_21.3072 13374 13634 spaQ 0/0 100.0 100.0 NP_461810 (spaQ) type III secretion system minor export apparatus protein SpaQ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_33 length_33794 cov_21.3072 13638 14429 spaR 0/0 100.0 99.4 NP_461809 (spaR) type III secretion system minor export apparatus protein SpaR [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_33 length_33794 cov_21.3072 14416 15486 spaS 0/0 100.0 99.9 NP_461808 (spaS) type III secretion system export apparatus switch protein SpaS [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.4156 273831 274232 spiC/ssaB 0/0 100.0 99.5 NP_460358 (spiC/ssaB) type III secretion system protein SsaB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_33 length_33794 cov_21.3072 23317 24948 sptP 0/0 100.0 99.6 NP_461799 (sptP) type III secretion system effector SptP tyrosine phosphatase and GTPase-activating protein [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.4156 272336 273829 ssaC 0/0 100.0 98.9 NP_460359 (ssaC) type III secretion system secretin SsaC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.4156 271144 272355 ssaD 0/0 100.0 99.5 NP_460360 (ssaD) type III secretion system outer MS ring protein SsaD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.4156 270894 271136 ssaE 0/0 100.0 100.0 NP_460361 (ssaE) chaperone for sseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.4156 264540 264755 ssaG 0/0 100.0 99.5 NP_460371 (ssaG) type III secretion system needle filament protein SsaG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.4156 264272 264499 ssaH 0/0 100.0 100.0 NP_460372 (ssaH) type III secretion system protein SsaH [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.4156 264012 264260 ssaI 0/0 100.0 100.0 NP_460373 (ssaI) type III secretion system inner rod protein SsaI [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.4156 263266 264015 ssaJ 0/0 100.0 98.8 NP_460374 (ssaJ) type III secretion system inner MS ring protein SsaJ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.4156 262029 262703 ssaK 0/0 100.0 99.6 NP_460376 (ssaK) type III secretion system stator SsaK [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.4156 261047 262063 ssaL 0/0 100.0 99.4 NP_460377 (ssaL) type III secretion system gatekeeper SsaL [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.4156 260621 260989 ssaM 0/0 100.0 99.7 NP_460378 (ssaM) type III secretion system protein SsaM [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.4156 257300 258601 ssaN 0/0 100.0 98.6 NP_460380 (ssaN) type III secretion system ATPase SsaN [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.4156 256920 257297 ssaO 0/0 100.0 99.7 NP_460381 (ssaO) type III secretion system stalk protein SsaO [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.4156 256565 256939 ssaP 0/0 100.0 99.5 NP_460382 (ssaP) type III secretion system needle length regulator SsaP [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.4156 255616 256584 ssaQ 0/0 100.0 98.0 NP_460383 (ssaQ) type III secretion system C ring protein SsaQ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.4156 254901 255548 ssaR 0/0 100.0 98.9 NP_460384 (ssaR) type III secretion system minor export apparatus protein SsaR [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.4156 254638 254904 ssaS 0/0 100.0 99.6 NP_460385 (ssaS) type III secretion system minor export apparatus protein SsaS [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.4156 253858 254637 ssaT 0/0 100.0 98.8 NP_460386 (ssaT) type III secretion system minor export apparatus protein SsaT [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.4156 252803 253861 ssaU 0/0 100.0 99.2 NP_460387 (ssaU) type III secretion system export apparatus switch protein SsaU [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.4156 258591 260636 ssaV 0/0 100.0 99.8 NP_460379 (ssaV) type III secretion system major export apparatus protein ssaV [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.4156 269298 269771 sscA 0/0 100.0 99.2 NP_460364 (sscA) chaperone for sseC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.4156 266333 266767 sscB 0/0 100.0 100.0 NP_460368 (sscB) chaperone for sseF [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.4156 270365 270691 sseA 0/0 100.0 99.7 NP_460362 (sseA) chaperone for sseB and sseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.4156 269768 270358 sseB 0/0 100.0 100.0 NP_460363 (sseB) type III secretion system effector SseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.4156 267841 269295 sseC 0/0 100.0 99.1 NP_460365 (sseC) type III secretion system hydrophilic translocator pore protein SseC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.4156 267238 267825 sseD 0/0 100.0 100.0 NP_460366 (sseD) type III secretion system hydrophilic translocator pore protein SseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.4156 266819 267235 sseE 0/0 100.0 99.8 NP_460367 (sseE) type III secretion system effector SseE [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.4156 265535 266317 sseF 0/0 100.0 99.2 NP_460369 (sseF) type III secretion system effector SseF [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.4156 264849 265538 sseG 0/0 100.0 99.4 NP_460370 (sseG) type III secretion system effector SseG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_12 length_163604 cov_19.6098 160554 161522 sseI/srfH 0/0 100.0 99.7 NP_460026 (sseI/srfH) type III secretion system effector SseI/SrfH cysteine protease [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.4156 31625 32851 sseJ 0/0 100.0 99.7 NP_460590 (sseJ) type III secretion system effector SseJ glycerophospholipid:cholesterol acyltransferase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_14 length_155456 cov_20.67 41305 42258 sseL 0/0 100.0 96.5 NP_461229 (sseL) type III secretion system effector SseL deubiquitinase [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_197194 cov_20.3343 4336 6702 sspH2 0/0 100.0 99.7 NP_461184 (sspH2) type III secretion system effector SspH2 E3 ubiquitin ligase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.4156 88719 89351 steA 0/0 100.0 97.5 NP_460542 (steA) type III secretion system effector SteA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_343106 cov_18.4156 34122 34522 steB 1/1 99.8 99.8 AAL20547 (steB) type III secretion system effector SteB [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_191046 cov_18.0569 48393 49766 steC 0/0 100.0 99.4 NP_460656 (steC) type III secretion system effector SteC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
MS0501
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_65 length_22305 cov_19.0694 6804 7346 bcfA 0/0 100.0 98.9 NP_459026 (bcfA) fimbrial subunit [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_65 length_22305 cov_19.0694 7447 8133 bcfB 0/0 100.0 99.8 NP_459027 (bcfB) fimbrial chaparone [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_65 length_22305 cov_19.0694 8138 10759 bcfC 0/0 100.0 98.3 NP_459028 (bcfC) fimbrial usher [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_65 length_22305 cov_19.0694 10760 11767 bcfD 0/0 100.0 97.9 NP_459029 (bcfD) fimbrial adhesin protein [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_65 length_22305 cov_19.0694 11768 12313 bcfE 0/0 100.0 98.5 NP_459030 (bcfE) fimbrial subunit [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_65 length_22305 cov_19.0694 12329 12847 bcfF 0/0 100.0 98.3 NP_459031 (bcfF) fimbrial subunit [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_65 length_22305 cov_19.0694 12813 13544 bcfG 0/0 100.0 98.5 NP_459032 (bcfG) fimbrial chaparone [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_109 length_3491 cov_10.6106 180 989 cdtB 0/0 100.0 100.0 NP_456275 (cdtB) cytolethal distending toxin B [CdtB (VF0407)] [Salmonella enterica subsp. enterica serovar Typhi str. CT18]
NODE_6 length_135378 cov_17.0184 101888 102343 csgA 0/0 100.0 98.9 NP_460115 (csgA) curlin major subunit CsgA [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_135378 cov_17.0184 102385 102840 csgB 0/0 100.0 99.3 NP_460114 (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_135378 cov_17.0184 101500 101826 csgC 0/0 100.0 99.4 NP_460116 (csgC) curli assembly protein CsgC [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_135378 cov_17.0184 103595 104245 csgD 0/0 100.0 99.1 NP_460113 (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_135378 cov_17.0184 104250 104645 csgE 0/0 100.0 99.5 NP_460112 (csgE) curli production assembly/transport protein CsgE [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_135378 cov_17.0184 104672 105088 csgF 0/0 100.0 100.0 NP_460111 (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_135378 cov_17.0184 105115 105948 csgG 0/0 100.0 99.6 NP_460110 (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_194862 cov_19.9979 15129 15821 fimC 0/0 100.0 98.4 NP_459540 (fimC) chaperone protein FimC [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_194862 cov_19.9979 12486 15098 fimD 0/0 100.0 98.7 NP_459541 (fimD) usher protein FimD [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_194862 cov_19.9979 10937 11454 fimF 0/0 99.8 98.5 NP_459543 (fimF) type I fimbriae adaptor protein FimF [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_194862 cov_19.9979 11464 12471 fimH 0/0 100.0 98.2 NP_459542 (fimH) type I fimbriae minor fimbrial subunit FimH adhesin [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_194862 cov_19.9979 15865 16398 fimI 0/0 100.0 99.1 NP_459539 (fimI) fimbrial protein internal segment [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_35322 cov_18.0817 8044 10101 invA 0/0 100.0 99.4 NP_461817 (invA) type III secretion system major export apparatus protein InvA [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_35322 cov_18.0817 10125 10532 invB 0/0 100.0 99.3 NP_461816 (invB) type III secretion system protein InvB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_35322 cov_18.0817 10529 11824 invC 0/0 100.0 99.2 NP_461815 (invC) type III secretion system ATPase InvC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_35322 cov_18.0817 6901 8019 invE 0/0 100.0 99.3 NP_461818 (invE) type III secretion system gatekeeper invE [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_35322 cov_18.0817 4569 5219 invF 0/0 100.0 99.5 NP_461820 (invF) type III secretion system regulatory protein InvF [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_35322 cov_18.0817 5216 6904 invG 0/0 100.0 98.9 NP_461819 (invG) type III secretion system secretin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_35322 cov_18.0817 3669 4112 invH 0/0 100.0 98.7 NP_461821 (invH) type III secretion system pilotin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_35322 cov_18.0817 11802 12245 invI 0/0 100.0 99.5 NP_461814 (invI) type III secretion system stalk protein InvI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_35322 cov_18.0817 12245 13255 invJ 0/0 100.0 98.7 NP_461813 (invJ) type III secretion system needle length regulator InvJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_26 length_54162 cov_23.2666 1860 4586 mgtB 0/0 100.0 98.7 NP_462662 (mgtB) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_26 length_54162 cov_23.2666 4807 5502 mgtC 0/0 100.0 98.6 NP_462663 (mgtC) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_98963 cov_19.7083 81703 82599 mig-14 0/0 100.0 97.2 NP_461708 (mig-14) antimicrobial peptide resistance protein Mig-14 [Mig-14 (VF0395)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_98 length_6029 cov_19.8197 1179 4031 misL 1/15 99.5 97.6 NP_462656 (misL) putative autotransporter [MisL (VF0397)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_35322 cov_18.0817 33467 34066 orgA 0/0 100.0 99.5 NP_461791 (orgA) type III secretion system accessory cytosolic protein OrgA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_35322 cov_18.0817 34023 34713 orgB 1/10 100.0 98.0 NP_461790 (orgB) type III secretion system stator OrgB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_35322 cov_18.0817 34710 35162 orgC 0/0 100.0 98.7 NP_461789 (orgC) type III secretion system effector OrgC [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_43 length_36329 cov_17.0979 241 1116 pipB 0/0 100.0 98.5 NP_460061 (pipB) type III secretion system effector PipB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_35322 cov_18.0817 30971 32149 prgH 0/0 100.0 99.2 NP_461795 (prgH) type III secretion system outer MS ring protein PrgH [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_35322 cov_18.0817 32174 32416 prgI 0/0 100.0 100.0 NP_461794 (prgI) type III secretion system needle filament protein PrgI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_35322 cov_18.0817 32435 32740 prgJ 0/0 100.0 99.7 NP_461793 (prgJ) type III secretion system inner rod protein PrgJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_35322 cov_18.0817 32737 33495 prgK 0/0 100.0 99.6 NP_461792 (prgK) type III secretion system inner MS ring protein PrgK [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_35322 cov_18.0817 17106 17603 sicA 0/0 100.0 99.4 NP_461807 (sicA) chaparone for SipC and SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_35322 cov_18.0817 24411 24803 sicP 0/0 100.0 99.2 NP_461800 (sicP) chaparone for SptP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_135378 cov_17.0184 16778 17788 sifA 0/0 100.0 96.7 NP_460194 (sifA) type III secretion system effector SifA N-terminal SKIP-binding domain C-terminal guanine nucleotide exchange factor activity [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_50 length_31448 cov_14.8458 270 1220 sifB 0/0 100.0 95.7 NP_460561 (sifB) type III secretion system effector SifB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_78 length_14674 cov_20.275 131 2323 sinH 0/0 100.0 95.6 NP_461452 (sinH) intimin-like protein [SinH (VF0400)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_35322 cov_18.0817 21756 23813 sipA/sspA 0/0 100.0 98.3 NP_461803 (sipA/sspA) type III secretion system effector SipA actin polymerizing activity [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_35322 cov_18.0817 17606 19387 sipB/sspB 0/0 100.0 99.4 NP_461806 (sipB/sspB) type III secretion system hydrophilic translocator pore protein SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_35322 cov_18.0817 19415 20644 sipC/sspC 0/0 100.0 99.5 NP_461805 (sipC/sspC) type III secretion system hydrophilic translocator pore protein SipC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_35322 cov_18.0817 20715 21737 sipD 3/11 99.0 90.3 NP_461804 (sipD) type III secretion system hydrophilic translocator needle tip protein SipD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_13 length_93603 cov_16.4803 32533 34800 slrP 2/30 98.7 94.6 NP_459778 (slrP) type III secretion system effector SlrP E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_21 length_65339 cov_17.9413 45745 48093 sopA 0/0 100.0 97.2 NP_461011 (sopA) type III secretion system effector SopA E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_87 length_10509 cov_16.2412 8158 9843 sopB/sigD 0/0 100.0 98.2 NP_460064 (sopB/sigD) type III secretion system effector SopB phosphoinositide phosphatase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_28 length_53692 cov_20.9044 12105 13058 sopD 0/0 100.0 97.7 NP_461866 (sopD) type III secretion system effector SopD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_46 length_34888 cov_15.0279 13902 14624 sopE2 0/0 100.0 98.1 NP_460811 (sopE2) type III secretion system effector SopE2 guanine nucleotide exchange factor [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_35322 cov_18.0817 13255 14166 spaO 0/0 100.0 98.7 NP_461812 (spaO) type III secretion system C ring protein SpaO [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_35322 cov_18.0817 14156 14830 spaP 0/0 100.0 98.7 NP_461811 (spaP) type III secretion system minor export apparatus protein SpaP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_35322 cov_18.0817 14856 15116 spaQ 0/0 100.0 99.6 NP_461810 (spaQ) type III secretion system minor export apparatus protein SpaQ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_35322 cov_18.0817 15120 15911 spaR 0/0 100.0 99.0 NP_461809 (spaR) type III secretion system minor export apparatus protein SpaR [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_35322 cov_18.0817 15898 16968 spaS 0/0 100.0 98.5 NP_461808 (spaS) type III secretion system export apparatus switch protein SpaS [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_68 length_20602 cov_15.0866 20079 20480 spiC/ssaB 0/0 100.0 99.2 NP_460358 (spiC/ssaB) type III secretion system protein SsaB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_45 length_35322 cov_18.0817 24790 26421 sptP 0/0 100.0 97.6 NP_461799 (sptP) type III secretion system effector SptP tyrosine phosphatase and GTPase-activating protein [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_68 length_20602 cov_15.0866 18584 20077 ssaC 0/0 100.0 98.5 NP_460359 (ssaC) type III secretion system secretin SsaC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_68 length_20602 cov_15.0866 17392 18603 ssaD 0/0 100.0 98.2 NP_460360 (ssaD) type III secretion system outer MS ring protein SsaD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_68 length_20602 cov_15.0866 17142 17384 ssaE 0/0 100.0 99.2 NP_460361 (ssaE) chaperone for sseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_68 length_20602 cov_15.0866 10788 11003 ssaG 0/0 100.0 100.0 NP_460371 (ssaG) type III secretion system needle filament protein SsaG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_68 length_20602 cov_15.0866 10520 10747 ssaH 0/0 100.0 99.6 NP_460372 (ssaH) type III secretion system protein SsaH [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_68 length_20602 cov_15.0866 10260 10508 ssaI 0/0 100.0 98.8 NP_460373 (ssaI) type III secretion system inner rod protein SsaI [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_68 length_20602 cov_15.0866 9514 10263 ssaJ 0/0 100.0 98.1 NP_460374 (ssaJ) type III secretion system inner MS ring protein SsaJ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_68 length_20602 cov_15.0866 8277 8951 ssaK 0/0 100.0 98.5 NP_460376 (ssaK) type III secretion system stator SsaK [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_68 length_20602 cov_15.0866 7295 8311 ssaL 0/0 100.0 99.0 NP_460377 (ssaL) type III secretion system gatekeeper SsaL [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_68 length_20602 cov_15.0866 6869 7237 ssaM 0/0 100.0 97.0 NP_460378 (ssaM) type III secretion system protein SsaM [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_68 length_20602 cov_15.0866 3548 4849 ssaN 0/0 100.0 98.8 NP_460380 (ssaN) type III secretion system ATPase SsaN [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_68 length_20602 cov_15.0866 3168 3545 ssaO 0/0 100.0 98.2 NP_460381 (ssaO) type III secretion system stalk protein SsaO [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_68 length_20602 cov_15.0866 2813 3187 ssaP 0/0 100.0 99.5 NP_460382 (ssaP) type III secretion system needle length regulator SsaP [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_68 length_20602 cov_15.0866 1864 2832 ssaQ 0/0 100.0 98.1 NP_460383 (ssaQ) type III secretion system C ring protein SsaQ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_68 length_20602 cov_15.0866 1149 1796 ssaR 0/0 100.0 98.9 NP_460384 (ssaR) type III secretion system minor export apparatus protein SsaR [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_68 length_20602 cov_15.0866 886 1152 ssaS 0/0 100.0 99.2 NP_460385 (ssaS) type III secretion system minor export apparatus protein SsaS [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_68 length_20602 cov_15.0866 106 885 ssaT 0/0 100.0 97.6 NP_460386 (ssaT) type III secretion system minor export apparatus protein SsaT [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_68 length_20602 cov_15.0866 4839 6884 ssaV 0/0 100.0 99.0 NP_460379 (ssaV) type III secretion system major export apparatus protein ssaV [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_68 length_20602 cov_15.0866 15546 16019 sscA 0/0 100.0 97.5 NP_460364 (sscA) chaperone for sseC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_68 length_20602 cov_15.0866 12581 13015 sscB 0/0 100.0 99.5 NP_460368 (sscB) chaperone for sseF [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_68 length_20602 cov_15.0866 16613 16939 sseA 0/0 100.0 99.7 NP_460362 (sseA) chaperone for sseB and sseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_68 length_20602 cov_15.0866 16016 16606 sseB 0/0 100.0 97.1 NP_460363 (sseB) type III secretion system effector SseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_68 length_20602 cov_15.0866 14089 15543 sseC 0/0 100.0 97.2 NP_460365 (sseC) type III secretion system hydrophilic translocator pore protein SseC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_68 length_20602 cov_15.0866 13486 14073 sseD 0/0 100.0 96.9 NP_460366 (sseD) type III secretion system hydrophilic translocator pore protein SseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_68 length_20602 cov_15.0866 13067 13483 sseE 0/0 100.0 99.3 NP_460367 (sseE) type III secretion system effector SseE [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_68 length_20602 cov_15.0866 11783 12565 sseF 0/0 100.0 98.5 NP_460369 (sseF) type III secretion system effector SseF [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_68 length_20602 cov_15.0866 11097 11786 sseG 0/0 100.0 96.7 NP_460370 (sseG) type III secretion system effector SseG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_50 length_31448 cov_14.8458 29381 30607 sseJ 0/0 100.0 96.8 NP_460590 (sseJ) type III secretion system effector SseJ glycerophospholipid:cholesterol acyltransferase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_39 length_36904 cov_16.6877 14585 15217 steA 0/0 100.0 94.5 NP_460542 (steA) type III secretion system effector SteA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_50 length_31448 cov_14.8458 27709 28110 steB 0/0 100.0 97.5 AAL20547 (steB) type III secretion system effector SteB [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_95 length_7171 cov_12.9265 51 1424 steC 0/0 100.0 95.0 NP_460656 (steC) type III secretion system effector SteC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
MS0502
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_15 length_153308 cov_19.2231 2391 3299 avrA 0/0 100.0 99.6 NP_461786 (avrA) type III secretion system effector AvrA acetyltransferease [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_204883 cov_21.5508 34762 35304 bcfA 0/0 100.0 99.1 NP_459026 (bcfA) fimbrial subunit [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_204883 cov_21.5508 33975 34661 bcfB 0/0 100.0 99.7 NP_459027 (bcfB) fimbrial chaparone [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_204883 cov_21.5508 31349 33970 bcfC 0/0 100.0 99.2 NP_459028 (bcfC) fimbrial usher [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_204883 cov_21.5508 30341 31348 bcfD 0/0 100.0 98.5 NP_459029 (bcfD) fimbrial adhesin protein [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_204883 cov_21.5508 29795 30340 bcfE 0/0 100.0 98.5 NP_459030 (bcfE) fimbrial subunit [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_204883 cov_21.5508 29261 29779 bcfF 0/0 100.0 99.8 NP_459031 (bcfF) fimbrial subunit [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_7 length_204883 cov_21.5508 28564 29295 bcfG 0/0 100.0 99.0 NP_459032 (bcfG) fimbrial chaparone [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558286 cov_14.6997 1041 1496 csgA 0/0 100.0 99.1 NP_460115 (csgA) curlin major subunit CsgA [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558286 cov_14.6997 544 999 csgB 0/0 100.0 99.8 NP_460114 (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558286 cov_14.6997 1558 1884 csgC 0/0 100.0 99.7 NP_460116 (csgC) curli assembly protein CsgC [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_14 length_158383 cov_15.6154 192 842 csgD 0/0 100.0 99.7 NP_460113 (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_14 length_158383 cov_15.6154 847 1242 csgE 0/0 100.0 100.0 NP_460112 (csgE) curli production assembly/transport protein CsgE [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_14 length_158383 cov_15.6154 1269 1685 csgF 0/0 100.0 99.8 NP_460111 (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_14 length_158383 cov_15.6154 1712 2545 csgG 0/0 100.0 99.5 NP_460110 (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_311708 cov_19.7568 114309 115001 fimC 0/0 100.0 98.4 NP_459540 (fimC) chaperone protein FimC [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_311708 cov_19.7568 115032 117644 fimD 0/0 100.0 98.8 NP_459541 (fimD) usher protein FimD [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_311708 cov_19.7568 118676 119194 fimF 0/0 100.0 99.4 NP_459543 (fimF) type I fimbriae adaptor protein FimF [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_311708 cov_19.7568 117659 118666 fimH 0/0 100.0 98.2 NP_459542 (fimH) type I fimbriae minor fimbrial subunit FimH adhesin [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_311708 cov_19.7568 113732 114265 fimI 0/0 100.0 98.5 NP_459539 (fimI) fimbrial protein internal segment [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_195208 cov_20.4639 25193 27250 invA 0/0 100.0 99.2 NP_461817 (invA) type III secretion system major export apparatus protein InvA [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_195208 cov_20.4639 24762 25169 invB 0/0 100.0 99.0 NP_461816 (invB) type III secretion system protein InvB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_195208 cov_20.4639 23470 24765 invC 0/0 100.0 99.2 NP_461815 (invC) type III secretion system ATPase InvC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_195208 cov_20.4639 27275 28393 invE 0/0 100.0 99.4 NP_461818 (invE) type III secretion system gatekeeper invE [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_195208 cov_20.4639 30075 30725 invF 0/0 100.0 98.9 NP_461820 (invF) type III secretion system regulatory protein InvF [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_195208 cov_20.4639 28390 30078 invG 0/0 100.0 99.3 NP_461819 (invG) type III secretion system secretin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_195208 cov_20.4639 31183 31626 invH 0/0 100.0 98.9 NP_461821 (invH) type III secretion system pilotin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_195208 cov_20.4639 23049 23492 invI 0/0 100.0 99.5 NP_461814 (invI) type III secretion system stalk protein InvI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_195208 cov_20.4639 22039 23049 invJ 0/0 100.0 99.2 NP_461813 (invJ) type III secretion system needle length regulator InvJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_17 length_101920 cov_24.0111 48470 51196 mgtB 0/0 100.0 99.4 NP_462662 (mgtB) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_17 length_101920 cov_24.0111 47555 48250 mgtC 0/0 100.0 99.0 NP_462663 (mgtC) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_153308 cov_19.2231 82570 83466 mig-14 0/0 100.0 97.8 NP_461708 (mig-14) antimicrobial peptide resistance protein Mig-14 [Mig-14 (VF0395)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_17 length_101920 cov_24.0111 55110 57977 misL 0/0 100.0 99.2 NP_462656 (misL) putative autotransporter [MisL (VF0397)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_195208 cov_20.4639 1219 1818 orgA 0/0 100.0 100.0 NP_461791 (orgA) type III secretion system accessory cytosolic protein OrgA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_195208 cov_20.4639 582 1262 orgB 0/0 100.0 99.7 NP_461790 (orgB) type III secretion system stator OrgB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_195208 cov_20.4639 133 585 orgC 0/0 100.0 99.3 NP_461789 (orgC) type III secretion system effector OrgC [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_14 length_158383 cov_15.6154 52697 53572 pipB 0/0 100.0 98.6 NP_460061 (pipB) type III secretion system effector PipB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_15 length_153308 cov_19.2231 85208 86260 pipB2 0/0 100.0 98.3 NP_461706 (pipB2) type III secretion system effector PipB3 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_195208 cov_20.4639 3136 4314 prgH 0/0 100.0 99.6 NP_461795 (prgH) type III secretion system outer MS ring protein PrgH [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_195208 cov_20.4639 2869 3111 prgI 0/0 100.0 100.0 NP_461794 (prgI) type III secretion system needle filament protein PrgI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_195208 cov_20.4639 2545 2850 prgJ 0/0 100.0 99.7 NP_461793 (prgJ) type III secretion system inner rod protein PrgJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_195208 cov_20.4639 1790 2548 prgK 0/0 100.0 99.9 NP_461792 (prgK) type III secretion system inner MS ring protein PrgK [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_360607 cov_17.3835 107423 113551 shdA 5/13 100.0 94.2 NP_461448 (shdA) AIDA autotransporter-like protein [ShdA (VF0398)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_195208 cov_20.4639 17691 18188 sicA 0/0 100.0 99.2 NP_461807 (sicA) chaparone for SipC and SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_195208 cov_20.4639 10482 10874 sicP 0/0 100.0 100.0 NP_461800 (sicP) chaparone for SptP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558286 cov_14.6997 79252 80262 sifA 0/0 100.0 99.8 NP_460194 (sifA) type III secretion system effector SifA N-terminal SKIP-binding domain C-terminal guanine nucleotide exchange factor activity [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558286 cov_14.6997 459081 460031 sifB 0/0 100.0 97.2 NP_460561 (sifB) type III secretion system effector SifB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_360607 cov_17.3835 97419 99611 sinH 0/0 100.0 98.3 NP_461452 (sinH) intimin-like protein [SinH (VF0400)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_195208 cov_20.4639 11472 13529 sipA/sspA 0/0 100.0 99.8 NP_461803 (sipA/sspA) type III secretion system effector SipA actin polymerizing activity [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_195208 cov_20.4639 15907 17688 sipB/sspB 0/0 100.0 99.2 NP_461806 (sipB/sspB) type III secretion system hydrophilic translocator pore protein SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_195208 cov_20.4639 14650 15879 sipC/sspC 0/0 100.0 99.6 NP_461805 (sipC/sspC) type III secretion system hydrophilic translocator pore protein SipC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_195208 cov_20.4639 13548 14579 sipD 0/0 100.0 99.8 NP_461804 (sipD) type III secretion system hydrophilic translocator needle tip protein SipD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_11 length_179196 cov_15.8455 57314 59581 slrP 2/30 98.7 96.9 NP_459778 (slrP) type III secretion system effector SlrP E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_395533 cov_15.2345 19754 22102 sopA 0/0 100.0 99.3 NP_461011 (sopA) type III secretion system effector SopA E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_14 length_158383 cov_15.6154 50106 51791 sopB/sigD 0/0 100.0 99.8 NP_460064 (sopB/sigD) type III secretion system effector SopB phosphoinositide phosphatase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_195208 cov_20.4639 73106 74059 sopD 0/0 100.0 98.6 NP_461866 (sopD) type III secretion system effector SopD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_14 length_158383 cov_15.6154 129223 130182 sopD2 0/0 100.0 99.7 NP_459947 (sopD2) type III secretion system effector SopD2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_395533 cov_15.2345 232459 233181 sopE2 0/0 100.0 99.7 NP_460811 (sopE2) type III secretion system effector SopE2 guanine nucleotide exchange factor [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_195208 cov_20.4639 21128 22039 spaO 0/0 100.0 99.0 NP_461812 (spaO) type III secretion system C ring protein SpaO [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_195208 cov_20.4639 20464 21138 spaP 0/0 100.0 99.1 NP_461811 (spaP) type III secretion system minor export apparatus protein SpaP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_195208 cov_20.4639 20178 20438 spaQ 0/0 100.0 100.0 NP_461810 (spaQ) type III secretion system minor export apparatus protein SpaQ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_195208 cov_20.4639 19383 20174 spaR 0/0 100.0 99.8 NP_461809 (spaR) type III secretion system minor export apparatus protein SpaR [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_195208 cov_20.4639 18326 19396 spaS 0/0 100.0 100.0 NP_461808 (spaS) type III secretion system export apparatus switch protein SpaS [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558286 cov_14.6997 247342 247741 spiC/ssaB 0/0 99.5 99.8 NP_460358 (spiC/ssaB) type III secretion system protein SsaB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_195208 cov_20.4639 8864 10495 sptP 0/0 100.0 99.8 NP_461799 (sptP) type III secretion system effector SptP tyrosine phosphatase and GTPase-activating protein [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558286 cov_14.6997 247743 249236 ssaC 0/0 100.0 99.0 NP_460359 (ssaC) type III secretion system secretin SsaC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558286 cov_14.6997 249217 250428 ssaD 0/0 100.0 99.2 NP_460360 (ssaD) type III secretion system outer MS ring protein SsaD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558286 cov_14.6997 250436 250678 ssaE 0/0 100.0 100.0 NP_460361 (ssaE) chaperone for sseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558286 cov_14.6997 256877 257092 ssaG 0/0 100.0 100.0 NP_460371 (ssaG) type III secretion system needle filament protein SsaG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558286 cov_14.6997 257133 257360 ssaH 0/0 100.0 99.6 NP_460372 (ssaH) type III secretion system protein SsaH [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558286 cov_14.6997 257372 257620 ssaI 0/0 100.0 100.0 NP_460373 (ssaI) type III secretion system inner rod protein SsaI [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558286 cov_14.6997 257617 258366 ssaJ 0/0 100.0 99.3 NP_460374 (ssaJ) type III secretion system inner MS ring protein SsaJ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558286 cov_14.6997 258929 259603 ssaK 0/0 100.0 99.6 NP_460376 (ssaK) type III secretion system stator SsaK [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558286 cov_14.6997 259569 260585 ssaL 0/0 100.0 99.1 NP_460377 (ssaL) type III secretion system gatekeeper SsaL [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558286 cov_14.6997 260643 261011 ssaM 0/0 100.0 99.7 NP_460378 (ssaM) type III secretion system protein SsaM [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558286 cov_14.6997 263031 264332 ssaN 0/0 100.0 99.5 NP_460380 (ssaN) type III secretion system ATPase SsaN [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558286 cov_14.6997 264335 264712 ssaO 0/0 100.0 100.0 NP_460381 (ssaO) type III secretion system stalk protein SsaO [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558286 cov_14.6997 264693 265067 ssaP 0/0 100.0 99.7 NP_460382 (ssaP) type III secretion system needle length regulator SsaP [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558286 cov_14.6997 265048 266016 ssaQ 0/0 100.0 98.5 NP_460383 (ssaQ) type III secretion system C ring protein SsaQ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558286 cov_14.6997 266084 266731 ssaR 0/0 100.0 98.9 NP_460384 (ssaR) type III secretion system minor export apparatus protein SsaR [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558286 cov_14.6997 266728 266994 ssaS 0/0 100.0 99.6 NP_460385 (ssaS) type III secretion system minor export apparatus protein SsaS [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558286 cov_14.6997 266995 267774 ssaT 0/0 100.0 98.7 NP_460386 (ssaT) type III secretion system minor export apparatus protein SsaT [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558286 cov_14.6997 267771 268829 ssaU 0/0 100.0 99.2 NP_460387 (ssaU) type III secretion system export apparatus switch protein SsaU [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558286 cov_14.6997 260996 263041 ssaV 0/0 100.0 99.5 NP_460379 (ssaV) type III secretion system major export apparatus protein ssaV [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558286 cov_14.6997 251861 252334 sscA 0/0 100.0 98.9 NP_460364 (sscA) chaperone for sseC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558286 cov_14.6997 254865 255299 sscB 0/0 100.0 100.0 NP_460368 (sscB) chaperone for sseF [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558286 cov_14.6997 250941 251267 sseA 0/0 100.0 99.7 NP_460362 (sseA) chaperone for sseB and sseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558286 cov_14.6997 251274 251864 sseB 0/0 100.0 100.0 NP_460363 (sseB) type III secretion system effector SseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558286 cov_14.6997 252337 253791 sseC 0/0 100.0 98.1 NP_460365 (sseC) type III secretion system hydrophilic translocator pore protein SseC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558286 cov_14.6997 253807 254394 sseD 0/0 100.0 97.5 NP_460366 (sseD) type III secretion system hydrophilic translocator pore protein SseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558286 cov_14.6997 254397 254813 sseE 0/0 100.0 98.8 NP_460367 (sseE) type III secretion system effector SseE [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558286 cov_14.6997 255315 256097 sseF 0/0 100.0 99.4 NP_460369 (sseF) type III secretion system effector SseF [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558286 cov_14.6997 256094 256783 sseG 0/0 100.0 99.3 NP_460370 (sseG) type III secretion system effector SseG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558286 cov_14.6997 488194 489420 sseJ 0/0 100.0 99.4 NP_460590 (sseJ) type III secretion system effector SseJ glycerophospholipid:cholesterol acyltransferase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_13 length_163065 cov_16.7552 56384 57430 sseK2 0/0 100.0 100.0 NP_461081 (sseK2) type III secretion system effector SseK2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_360607 cov_17.3835 344329 345282 sseL 0/0 100.0 97.6 NP_461229 (sseL) type III secretion system effector SseL deubiquitinase [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_13 length_163065 cov_16.7552 156156 158522 sspH2 0/0 100.0 99.7 NP_461184 (sspH2) type III secretion system effector SspH2 E3 ubiquitin ligase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558286 cov_14.6997 436424 437043 steA 2/15 97.8 96.2 NP_460542 (steA) type III secretion system effector SteA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_558286 cov_14.6997 486522 486923 steB 0/0 100.0 99.8 AAL20547 (steB) type III secretion system effector SteB [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_31 length_12556 cov_10.5521 5349 6270 tcpC 2/2 99.8 95.9 NP_754290 (tcpC) Tir domain containing protein TcpC [TcpC (VF0413)] [Escherichia coli CFT073]
MS0503
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_6 length_226104 cov_17.4582 75187 76095 avrA 0/0 100.0 99.6 NP_461786 (avrA) type III secretion system effector AvrA acetyltransferease [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_11 length_180289 cov_18.9663 34762 35304 bcfA 0/0 100.0 99.1 NP_459026 (bcfA) fimbrial subunit [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_11 length_180289 cov_18.9663 33975 34661 bcfB 0/0 100.0 99.7 NP_459027 (bcfB) fimbrial chaparone [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_11 length_180289 cov_18.9663 31349 33970 bcfC 0/0 100.0 99.2 NP_459028 (bcfC) fimbrial usher [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_11 length_180289 cov_18.9663 30341 31348 bcfD 0/0 100.0 98.5 NP_459029 (bcfD) fimbrial adhesin protein [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_11 length_180289 cov_18.9663 29795 30340 bcfE 0/0 100.0 98.5 NP_459030 (bcfE) fimbrial subunit [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_11 length_180289 cov_18.9663 29261 29779 bcfF 0/0 100.0 99.8 NP_459031 (bcfF) fimbrial subunit [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_11 length_180289 cov_18.9663 28564 29295 bcfG 0/0 100.0 99.0 NP_459032 (bcfG) fimbrial chaparone [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_408239 cov_14.1248 162244 162699 csgA 0/0 100.0 99.1 NP_460115 (csgA) curlin major subunit CsgA [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_408239 cov_14.1248 161747 162202 csgB 0/0 100.0 99.8 NP_460114 (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_408239 cov_14.1248 162761 163087 csgC 0/0 100.0 99.7 NP_460116 (csgC) curli assembly protein CsgC [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_408239 cov_14.1248 160342 160992 csgD 0/0 100.0 99.7 NP_460113 (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_408239 cov_14.1248 159942 160337 csgE 0/0 100.0 100.0 NP_460112 (csgE) curli production assembly/transport protein CsgE [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_408239 cov_14.1248 159499 159915 csgF 0/0 100.0 99.8 NP_460111 (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_408239 cov_14.1248 158639 159472 csgG 0/0 100.0 99.5 NP_460110 (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_326616 cov_17.8675 211599 212291 fimC 0/0 100.0 98.4 NP_459540 (fimC) chaperone protein FimC [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_326616 cov_17.8675 208956 211568 fimD 0/0 100.0 98.8 NP_459541 (fimD) usher protein FimD [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_326616 cov_17.8675 207406 207924 fimF 0/0 100.0 99.4 NP_459543 (fimF) type I fimbriae adaptor protein FimF [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_326616 cov_17.8675 207934 208941 fimH 0/0 100.0 98.2 NP_459542 (fimH) type I fimbriae minor fimbrial subunit FimH adhesin [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_326616 cov_17.8675 212335 212868 fimI 0/0 100.0 98.5 NP_459539 (fimI) fimbrial protein internal segment [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226104 cov_17.4582 45537 47594 invA 0/0 100.0 99.2 NP_461817 (invA) type III secretion system major export apparatus protein InvA [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226104 cov_17.4582 47618 48025 invB 0/0 100.0 99.0 NP_461816 (invB) type III secretion system protein InvB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226104 cov_17.4582 48022 49317 invC 0/0 100.0 99.2 NP_461815 (invC) type III secretion system ATPase InvC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226104 cov_17.4582 44394 45512 invE 0/0 100.0 99.4 NP_461818 (invE) type III secretion system gatekeeper invE [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226104 cov_17.4582 42062 42712 invF 0/0 100.0 98.9 NP_461820 (invF) type III secretion system regulatory protein InvF [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226104 cov_17.4582 42709 44397 invG 0/0 100.0 99.3 NP_461819 (invG) type III secretion system secretin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226104 cov_17.4582 41161 41604 invH 0/0 100.0 98.9 NP_461821 (invH) type III secretion system pilotin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226104 cov_17.4582 49295 49738 invI 0/0 100.0 99.5 NP_461814 (invI) type III secretion system stalk protein InvI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226104 cov_17.4582 49738 50748 invJ 0/0 100.0 99.2 NP_461813 (invJ) type III secretion system needle length regulator InvJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_18 length_101167 cov_21.2632 48251 50977 mgtB 0/0 100.0 99.4 NP_462662 (mgtB) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_18 length_101167 cov_21.2632 47336 48031 mgtC 0/0 100.0 99.0 NP_462663 (mgtC) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226104 cov_17.4582 155366 156262 mig-14 0/0 100.0 97.8 NP_461708 (mig-14) antimicrobial peptide resistance protein Mig-14 [Mig-14 (VF0395)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_18 length_101167 cov_21.2632 54891 57758 misL 0/0 100.0 99.2 NP_462656 (misL) putative autotransporter [MisL (VF0397)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226104 cov_17.4582 70969 71568 orgA 0/0 100.0 100.0 NP_461791 (orgA) type III secretion system accessory cytosolic protein OrgA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226104 cov_17.4582 71525 72205 orgB 0/0 100.0 99.7 NP_461790 (orgB) type III secretion system stator OrgB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226104 cov_17.4582 72202 72654 orgC 0/0 100.0 99.3 NP_461789 (orgC) type III secretion system effector OrgC [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_408239 cov_14.1248 107612 108487 pipB 0/0 100.0 98.6 NP_460061 (pipB) type III secretion system effector PipB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226104 cov_17.4582 158004 159056 pipB2 0/0 100.0 98.3 NP_461706 (pipB2) type III secretion system effector PipB3 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226104 cov_17.4582 68473 69651 prgH 0/0 100.0 99.6 NP_461795 (prgH) type III secretion system outer MS ring protein PrgH [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226104 cov_17.4582 69676 69918 prgI 0/0 100.0 100.0 NP_461794 (prgI) type III secretion system needle filament protein PrgI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226104 cov_17.4582 69937 70242 prgJ 0/0 100.0 99.7 NP_461793 (prgJ) type III secretion system inner rod protein PrgJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226104 cov_17.4582 70239 70997 prgK 0/0 100.0 99.9 NP_461792 (prgK) type III secretion system inner MS ring protein PrgK [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_301022 cov_16.4564 187472 193600 shdA 5/13 100.0 94.2 NP_461448 (shdA) AIDA autotransporter-like protein [ShdA (VF0398)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226104 cov_17.4582 54599 55096 sicA 0/0 100.0 99.2 NP_461807 (sicA) chaparone for SipC and SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226104 cov_17.4582 61913 62305 sicP 0/0 100.0 100.0 NP_461800 (sicP) chaparone for SptP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_408239 cov_14.1248 240455 241465 sifA 0/0 100.0 99.8 NP_460194 (sifA) type III secretion system effector SifA N-terminal SKIP-binding domain C-terminal guanine nucleotide exchange factor activity [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.5055 190025 190975 sifB 0/0 100.0 97.2 NP_460561 (sifB) type III secretion system effector SifB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_4 length_301022 cov_16.4564 201412 203604 sinH 0/0 100.0 98.3 NP_461452 (sinH) intimin-like protein [SinH (VF0400)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226104 cov_17.4582 59258 61315 sipA/sspA 0/0 100.0 99.8 NP_461803 (sipA/sspA) type III secretion system effector SipA actin polymerizing activity [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226104 cov_17.4582 55099 56880 sipB/sspB 0/0 100.0 99.2 NP_461806 (sipB/sspB) type III secretion system hydrophilic translocator pore protein SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226104 cov_17.4582 56908 58137 sipC/sspC 0/0 100.0 99.6 NP_461805 (sipC/sspC) type III secretion system hydrophilic translocator pore protein SipC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226104 cov_17.4582 58208 59239 sipD 0/0 100.0 99.8 NP_461804 (sipD) type III secretion system hydrophilic translocator needle tip protein SipD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_197559 cov_14.6957 75709 77976 slrP 2/30 98.7 96.9 NP_459778 (slrP) type III secretion system effector SlrP E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_24 length_46382 cov_14.9347 17962 20310 sopA 0/0 100.0 99.3 NP_461011 (sopA) type III secretion system effector SopA E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_408239 cov_14.1248 109393 111078 sopB/sigD 0/0 100.0 99.8 NP_460064 (sopB/sigD) type III secretion system effector SopB phosphoinositide phosphatase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_17 length_122553 cov_18.3323 329 1282 sopD 0/0 100.0 98.6 NP_461866 (sopD) type III secretion system effector SopD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_408239 cov_14.1248 31002 31961 sopD2 0/0 100.0 99.7 NP_459947 (sopD2) type III secretion system effector SopD2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_10 length_196382 cov_14.5915 126303 127025 sopE2 0/0 100.0 99.7 NP_460811 (sopE2) type III secretion system effector SopE2 guanine nucleotide exchange factor [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226104 cov_17.4582 50748 51659 spaO 0/0 100.0 99.0 NP_461812 (spaO) type III secretion system C ring protein SpaO [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226104 cov_17.4582 51649 52323 spaP 0/0 100.0 99.1 NP_461811 (spaP) type III secretion system minor export apparatus protein SpaP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226104 cov_17.4582 52349 52609 spaQ 0/0 100.0 100.0 NP_461810 (spaQ) type III secretion system minor export apparatus protein SpaQ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226104 cov_17.4582 52613 53404 spaR 0/0 100.0 99.8 NP_461809 (spaR) type III secretion system minor export apparatus protein SpaR [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226104 cov_17.4582 53391 54461 spaS 0/0 100.0 100.0 NP_461808 (spaS) type III secretion system export apparatus switch protein SpaS [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.5055 402408 402807 spiC/ssaB 0/0 99.5 99.8 NP_460358 (spiC/ssaB) type III secretion system protein SsaB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_6 length_226104 cov_17.4582 62292 63923 sptP 0/0 100.0 99.8 NP_461799 (sptP) type III secretion system effector SptP tyrosine phosphatase and GTPase-activating protein [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.5055 400913 402406 ssaC 0/0 100.0 99.0 NP_460359 (ssaC) type III secretion system secretin SsaC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.5055 399721 400932 ssaD 0/0 100.0 99.2 NP_460360 (ssaD) type III secretion system outer MS ring protein SsaD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.5055 399471 399713 ssaE 0/0 100.0 100.0 NP_460361 (ssaE) chaperone for sseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.5055 393057 393272 ssaG 0/0 100.0 100.0 NP_460371 (ssaG) type III secretion system needle filament protein SsaG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.5055 392789 393016 ssaH 0/0 100.0 99.6 NP_460372 (ssaH) type III secretion system protein SsaH [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.5055 392529 392777 ssaI 0/0 100.0 100.0 NP_460373 (ssaI) type III secretion system inner rod protein SsaI [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.5055 391783 392532 ssaJ 0/0 100.0 99.3 NP_460374 (ssaJ) type III secretion system inner MS ring protein SsaJ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.5055 390546 391220 ssaK 0/0 100.0 99.6 NP_460376 (ssaK) type III secretion system stator SsaK [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.5055 389564 390580 ssaL 0/0 100.0 99.1 NP_460377 (ssaL) type III secretion system gatekeeper SsaL [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.5055 389138 389506 ssaM 0/0 100.0 99.7 NP_460378 (ssaM) type III secretion system protein SsaM [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.5055 385817 387118 ssaN 0/0 100.0 99.5 NP_460380 (ssaN) type III secretion system ATPase SsaN [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.5055 385437 385814 ssaO 0/0 100.0 100.0 NP_460381 (ssaO) type III secretion system stalk protein SsaO [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.5055 385082 385456 ssaP 0/0 100.0 99.7 NP_460382 (ssaP) type III secretion system needle length regulator SsaP [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.5055 384133 385101 ssaQ 0/0 100.0 98.5 NP_460383 (ssaQ) type III secretion system C ring protein SsaQ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.5055 383418 384065 ssaR 0/0 100.0 98.9 NP_460384 (ssaR) type III secretion system minor export apparatus protein SsaR [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.5055 383155 383421 ssaS 0/0 100.0 99.6 NP_460385 (ssaS) type III secretion system minor export apparatus protein SsaS [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.5055 382375 383154 ssaT 0/0 100.0 98.7 NP_460386 (ssaT) type III secretion system minor export apparatus protein SsaT [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.5055 381320 382378 ssaU 0/0 100.0 99.2 NP_460387 (ssaU) type III secretion system export apparatus switch protein SsaU [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.5055 387108 389153 ssaV 0/0 100.0 99.5 NP_460379 (ssaV) type III secretion system major export apparatus protein ssaV [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.5055 397815 398288 sscA 0/0 100.0 98.9 NP_460364 (sscA) chaperone for sseC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.5055 394850 395284 sscB 0/0 100.0 100.0 NP_460368 (sscB) chaperone for sseF [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.5055 398882 399208 sseA 0/0 100.0 99.7 NP_460362 (sseA) chaperone for sseB and sseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.5055 398285 398875 sseB 0/0 100.0 100.0 NP_460363 (sseB) type III secretion system effector SseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.5055 396358 397812 sseC 0/0 100.0 98.1 NP_460365 (sseC) type III secretion system hydrophilic translocator pore protein SseC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.5055 395755 396342 sseD 0/0 100.0 97.5 NP_460366 (sseD) type III secretion system hydrophilic translocator pore protein SseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.5055 395336 395752 sseE 0/0 100.0 98.8 NP_460367 (sseE) type III secretion system effector SseE [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.5055 394052 394834 sseF 0/0 100.0 99.4 NP_460369 (sseF) type III secretion system effector SseF [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.5055 393366 394055 sseG 0/0 100.0 99.3 NP_460370 (sseG) type III secretion system effector SseG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.5055 160636 161862 sseJ 0/0 100.0 99.4 NP_460590 (sseJ) type III secretion system effector SseJ glycerophospholipid:cholesterol acyltransferase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_13 length_163059 cov_15.5223 105417 106463 sseK2 0/0 100.0 99.9 NP_461081 (sseK2) type III secretion system effector SseK2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_20 length_85728 cov_16.0105 43211 44164 sseL 0/0 100.0 97.6 NP_461229 (sseL) type III secretion system effector SseL deubiquitinase [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_13 length_163059 cov_15.5223 4325 6691 sspH2 0/0 100.0 99.7 NP_461184 (sspH2) type III secretion system effector SspH2 E3 ubiquitin ligase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.5055 213013 213632 steA 2/15 97.8 96.2 NP_460542 (steA) type III secretion system effector SteA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.5055 163133 163534 steB 0/0 100.0 99.8 AAL20547 (steB) type III secretion system effector SteB [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_2 length_403085 cov_13.5055 91596 92969 steC 0/0 100.0 99.3 NP_460656 (steC) type III secretion system effector SteC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_37 length_4319 cov_8.69323 849 1770 tcpC 2/2 99.8 95.9 NP_754290 (tcpC) Tir domain containing protein TcpC [TcpC (VF0413)] [Escherichia coli CFT073]
MS0504
Contig Start End Gene Gaps Coverage Identity Accession Product
NODE_18 length_67170 cov_16.7038 63841 64748 avrA 1/1 99.9 99.8 NP_461786 (avrA) type III secretion system effector AvrA acetyltransferease [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_20 length_60557 cov_16.6091 9435 9977 bcfA 0/0 100.0 99.8 NP_459026 (bcfA) fimbrial subunit [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_20 length_60557 cov_16.6091 8648 9334 bcfB 0/0 100.0 99.4 NP_459027 (bcfB) fimbrial chaparone [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_20 length_60557 cov_16.6091 6022 8643 bcfC 0/0 100.0 99.0 NP_459028 (bcfC) fimbrial usher [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_20 length_60557 cov_16.6091 5014 6021 bcfD 0/0 100.0 98.8 NP_459029 (bcfD) fimbrial adhesin protein [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_20 length_60557 cov_16.6091 4468 5013 bcfE 0/0 100.0 98.0 NP_459030 (bcfE) fimbrial subunit [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_20 length_60557 cov_16.6091 3934 4452 bcfF 0/0 100.0 100.0 NP_459031 (bcfF) fimbrial subunit [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_20 length_60557 cov_16.6091 3237 3968 bcfG 0/0 100.0 98.9 NP_459032 (bcfG) fimbrial chaparone [bovine colonization factor (Bcf) (AI058)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_206809 cov_13.4863 93875 94330 csgA 0/0 100.0 100.0 NP_460115 (csgA) curlin major subunit CsgA [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_206809 cov_13.4863 93378 93833 csgB 0/0 100.0 100.0 NP_460114 (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_206809 cov_13.4863 94392 94718 csgC 0/0 100.0 100.0 NP_460116 (csgC) curli assembly protein CsgC [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_206809 cov_13.4863 91973 92623 csgD 0/0 100.0 99.5 NP_460113 (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_206809 cov_13.4863 91573 91968 csgE 0/0 100.0 100.0 NP_460112 (csgE) curli production assembly/transport protein CsgE [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_206809 cov_13.4863 91130 91546 csgF 0/0 100.0 100.0 NP_460111 (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_206809 cov_13.4863 90270 91103 csgG 0/0 100.0 99.5 NP_460110 (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_12 length_86138 cov_15.052 9357 10049 fimC 0/0 100.0 99.4 NP_459540 (fimC) chaperone protein FimC [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_12 length_86138 cov_15.052 6714 9326 fimD 0/0 100.0 98.7 NP_459541 (fimD) usher protein FimD [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_12 length_86138 cov_15.052 5164 5682 fimF 0/0 100.0 98.7 NP_459543 (fimF) type I fimbriae adaptor protein FimF [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_12 length_86138 cov_15.052 5692 6699 fimH 0/0 100.0 98.1 NP_459542 (fimH) type I fimbriae minor fimbrial subunit FimH adhesin [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_12 length_86138 cov_15.052 10093 10626 fimI 0/0 100.0 99.4 NP_459539 (fimI) fimbrial protein internal segment [Type 1 fimbriae (VF0102)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.5366 5501 7558 invA 0/0 100.0 99.4 NP_461817 (invA) type III secretion system major export apparatus protein InvA [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.5366 7582 7989 invB 0/0 100.0 99.0 NP_461816 (invB) type III secretion system protein InvB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.5366 7986 9281 invC 0/0 100.0 98.8 NP_461815 (invC) type III secretion system ATPase InvC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.5366 4358 5476 invE 0/0 100.0 99.9 NP_461818 (invE) type III secretion system gatekeeper invE [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.5366 2026 2676 invF 0/0 100.0 99.8 NP_461820 (invF) type III secretion system regulatory protein InvF [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.5366 2673 4361 invG 0/0 100.0 99.2 NP_461819 (invG) type III secretion system secretin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.5366 1127 1570 invH 0/0 100.0 99.3 NP_461821 (invH) type III secretion system pilotin invG [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.5366 9259 9702 invI 0/0 100.0 99.8 NP_461814 (invI) type III secretion system stalk protein InvI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.5366 9702 10712 invJ 0/0 100.0 99.5 NP_461813 (invJ) type III secretion system needle length regulator InvJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_105 length_11850 cov_21.7432 11207 11743 lpfA 0/0 100.0 99.8 NP_462541 (lpfA) long polar fimbria protein LpfA [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_105 length_11850 cov_21.7432 10424 11122 lpfB 0/0 100.0 99.9 NP_462540 (lpfB) long polar fimbrial chaperone protein LpfB [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_105 length_11850 cov_21.7432 7873 10401 lpfC 0/0 100.0 99.7 NP_462539 (lpfC) long polar fimbrial usher protein LpfC [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_105 length_11850 cov_21.7432 6776 7855 lpfD 0/0 100.0 99.9 NP_462538 (lpfD) long polar fimbrial protein LpfD [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_105 length_11850 cov_21.7432 6243 6770 lpfE 0/0 100.0 99.8 NP_462537 (lpfE) long polar fimbrial minor subunit LpfE adhesin [Lpf (VF0105)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_94112 cov_18.4614 49389 52115 mgtB 0/0 100.0 99.2 NP_462662 (mgtB) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_94112 cov_18.4614 48474 49169 mgtC 0/0 100.0 99.0 NP_462663 (mgtC) Mg2+ transport protein [MgtBC (VF0106)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_84 length_19144 cov_15.2427 2840 3736 mig-14 0/0 100.0 98.9 NP_461708 (mig-14) antimicrobial peptide resistance protein Mig-14 [Mig-14 (VF0395)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_9 length_94112 cov_18.4614 56030 58897 misL 0/0 100.0 99.2 NP_462656 (misL) putative autotransporter [MisL (VF0397)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_119 length_6242 cov_14.1665 4446 5045 orgA 0/0 100.0 99.8 NP_461791 (orgA) type III secretion system accessory cytosolic protein OrgA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_119 length_6242 cov_14.1665 5002 5682 orgB 0/0 100.0 99.8 NP_461790 (orgB) type III secretion system stator OrgB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_119 length_6242 cov_14.1665 5679 6131 orgC 0/0 100.0 99.6 NP_461789 (orgC) type III secretion system effector OrgC [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_206809 cov_13.4863 39244 40119 pipB 0/0 100.0 99.8 NP_460061 (pipB) type III secretion system effector PipB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_84 length_19144 cov_15.2427 47 1099 pipB2 0/0 100.0 98.2 NP_461706 (pipB2) type III secretion system effector PipB3 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_119 length_6242 cov_14.1665 1950 3128 prgH 0/0 100.0 99.2 NP_461795 (prgH) type III secretion system outer MS ring protein PrgH [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_119 length_6242 cov_14.1665 3153 3395 prgI 0/0 100.0 100.0 NP_461794 (prgI) type III secretion system needle filament protein PrgI [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_119 length_6242 cov_14.1665 3414 3719 prgJ 0/0 100.0 100.0 NP_461793 (prgJ) type III secretion system inner rod protein PrgJ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_119 length_6242 cov_14.1665 3716 4474 prgK 0/0 100.0 99.9 NP_461792 (prgK) type III secretion system inner MS ring protein PrgK [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_95 length_16729 cov_16.0467 9191 16498 ratB 2/6 100.0 98.7 NP_461449 (ratB) putative outer membrane protein [RatB (VF0399)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.5366 14563 15060 sicA 0/0 100.0 99.8 NP_461807 (sicA) chaparone for SipC and SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.5366 21877 22269 sicP 0/0 100.0 99.2 NP_461800 (sicP) chaparone for SptP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_206809 cov_13.4863 172083 173093 sifA 0/0 100.0 100.0 NP_460194 (sifA) type III secretion system effector SifA N-terminal SKIP-binding domain C-terminal guanine nucleotide exchange factor activity [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_94 length_16950 cov_12.0072 15928 16878 sifB 0/0 100.0 99.5 NP_460561 (sifB) type III secretion system effector SifB [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_95 length_16729 cov_16.0467 96 2288 sinH 0/0 100.0 99.5 NP_461452 (sinH) intimin-like protein [SinH (VF0400)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.5366 19222 21279 sipA/sspA 0/0 100.0 99.8 NP_461803 (sipA/sspA) type III secretion system effector SipA actin polymerizing activity [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.5366 15063 16844 sipB/sspB 0/0 100.0 99.2 NP_461806 (sipB/sspB) type III secretion system hydrophilic translocator pore protein SipB [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.5366 16872 18101 sipC/sspC 0/0 100.0 99.6 NP_461805 (sipC/sspC) type III secretion system hydrophilic translocator pore protein SipC [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.5366 18172 19203 sipD 0/0 100.0 99.8 NP_461804 (sipD) type III secretion system hydrophilic translocator needle tip protein SipD [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_11 length_88493 cov_13.4831 28859 31126 slrP 2/30 98.7 96.8 NP_459778 (slrP) type III secretion system effector SlrP E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_34 length_45637 cov_15.5388 24884 27232 sopA 0/0 100.0 99.2 NP_461011 (sopA) type III secretion system effector SopA E3 ubiquitin ligase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_1 length_206809 cov_13.4863 41025 42710 sopB/sigD 0/0 100.0 99.8 NP_460064 (sopB/sigD) type III secretion system effector SopB phosphoinositide phosphatase [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_58 length_28598 cov_11.9214 12286 13008 sopE2 0/0 100.0 99.9 NP_460811 (sopE2) type III secretion system effector SopE2 guanine nucleotide exchange factor [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.5366 10712 11623 spaO 0/0 100.0 99.1 NP_461812 (spaO) type III secretion system C ring protein SpaO [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.5366 11613 12287 spaP 0/0 100.0 99.8 NP_461811 (spaP) type III secretion system minor export apparatus protein SpaP [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.5366 12313 12573 spaQ 0/0 100.0 100.0 NP_461810 (spaQ) type III secretion system minor export apparatus protein SpaQ [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.5366 12577 13368 spaR 0/0 100.0 99.4 NP_461809 (spaR) type III secretion system minor export apparatus protein SpaR [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.5366 13355 14425 spaS 0/0 100.0 99.8 NP_461808 (spaS) type III secretion system export apparatus switch protein SpaS [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.5288 134529 134930 spiC/ssaB 0/0 100.0 100.0 NP_460358 (spiC/ssaB) type III secretion system protein SsaB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_67 length_26468 cov_15.5366 22256 23887 sptP 0/0 100.0 99.8 NP_461799 (sptP) type III secretion system effector SptP tyrosine phosphatase and GTPase-activating protein [TTSS(SPI-1 encode) (VF0116)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.5288 133034 134527 ssaC 0/0 100.0 99.0 NP_460359 (ssaC) type III secretion system secretin SsaC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.5288 131842 133053 ssaD 0/0 100.0 99.2 NP_460360 (ssaD) type III secretion system outer MS ring protein SsaD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.5288 131592 131834 ssaE 0/0 100.0 100.0 NP_460361 (ssaE) chaperone for sseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.5288 125178 125393 ssaG 0/0 100.0 100.0 NP_460371 (ssaG) type III secretion system needle filament protein SsaG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.5288 124910 125137 ssaH 0/0 100.0 100.0 NP_460372 (ssaH) type III secretion system protein SsaH [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.5288 124650 124898 ssaI 0/0 100.0 99.6 NP_460373 (ssaI) type III secretion system inner rod protein SsaI [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.5288 123904 124653 ssaJ 0/0 100.0 99.2 NP_460374 (ssaJ) type III secretion system inner MS ring protein SsaJ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.5288 122667 123341 ssaK 0/0 100.0 99.6 NP_460376 (ssaK) type III secretion system stator SsaK [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.5288 121685 122701 ssaL 0/0 100.0 99.1 NP_460377 (ssaL) type III secretion system gatekeeper SsaL [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.5288 121259 121627 ssaM 0/0 100.0 100.0 NP_460378 (ssaM) type III secretion system protein SsaM [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.5288 117938 119239 ssaN 0/0 100.0 98.8 NP_460380 (ssaN) type III secretion system ATPase SsaN [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.5288 117558 117935 ssaO 0/0 100.0 99.7 NP_460381 (ssaO) type III secretion system stalk protein SsaO [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.5288 117203 117577 ssaP 0/0 100.0 99.5 NP_460382 (ssaP) type III secretion system needle length regulator SsaP [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.5288 116254 117222 ssaQ 0/0 100.0 98.1 NP_460383 (ssaQ) type III secretion system C ring protein SsaQ [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.5288 115539 116186 ssaR 0/0 100.0 98.9 NP_460384 (ssaR) type III secretion system minor export apparatus protein SsaR [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.5288 115276 115542 ssaS 0/0 100.0 99.6 NP_460385 (ssaS) type III secretion system minor export apparatus protein SsaS [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.5288 114496 115275 ssaT 0/0 100.0 98.5 NP_460386 (ssaT) type III secretion system minor export apparatus protein SsaT [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.5288 113441 114499 ssaU 0/0 100.0 99.0 NP_460387 (ssaU) type III secretion system export apparatus switch protein SsaU [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.5288 119229 121274 ssaV 0/0 100.0 99.8 NP_460379 (ssaV) type III secretion system major export apparatus protein ssaV [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.5288 129936 130409 sscA 0/0 100.0 98.7 NP_460364 (sscA) chaperone for sseC [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.5288 126971 127405 sscB 0/0 100.0 100.0 NP_460368 (sscB) chaperone for sseF [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.5288 131003 131329 sseA 0/0 100.0 99.7 NP_460362 (sseA) chaperone for sseB and sseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.5288 130406 130996 sseB 0/0 100.0 99.8 NP_460363 (sseB) type III secretion system effector SseB [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.5288 128479 129933 sseC 0/0 100.0 99.0 NP_460365 (sseC) type III secretion system hydrophilic translocator pore protein SseC [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.5288 127876 128463 sseD 0/0 100.0 100.0 NP_460366 (sseD) type III secretion system hydrophilic translocator pore protein SseD [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.5288 127457 127873 sseE 0/0 100.0 100.0 NP_460367 (sseE) type III secretion system effector SseE [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.5288 126173 126955 sseF 0/0 100.0 99.4 NP_460369 (sseF) type III secretion system effector SseF [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_3 length_135045 cov_13.5288 125487 126176 sseG 0/0 100.0 99.6 NP_460370 (sseG) type III secretion system effector SseG [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_111 length_7838 cov_10.2377 6169 7395 sseJ 0/0 100.0 99.4 NP_460590 (sseJ) type III secretion system effector SseJ glycerophospholipid:cholesterol acyltransferase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_14 length_77860 cov_15.3187 48441 49487 sseK2 0/0 100.0 99.7 NP_461081 (sseK2) type III secretion system effector SseK2 [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_22 length_59219 cov_14.7691 42936 43889 sseL 0/0 100.0 97.7 NP_461229 (sseL) type III secretion system effector SseL deubiquitinase [SPI-2 encoded T3SS (SS021)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_101 length_13335 cov_11.1965 3486 5597 sspH1 1/9 100.0 97.9 AAD40326 (sspH1) type III secretion system effector SspH1 E3 ubiquitin ligase [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. 14028s]
NODE_63 length_26799 cov_14.3557 2951 5317 sspH2 0/0 100.0 99.7 NP_461184 (sspH2) type III secretion system effector SspH2 E3 ubiquitin ligase [TTSS(SPI-2 encode) (VF0321)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_79 length_21202 cov_12.2853 6157 6789 steA 0/0 100.0 98.4 NP_460542 (steA) type III secretion system effector SteA [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]
NODE_62 length_27019 cov_12.7387 26366 26767 steB 0/0 100.0 100.0 AAL20547 (steB) type III secretion system effector SteB [SPI-1 encoded T3SS (SS010)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]


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Plasmids

The search of plasmid replicons was performed by screening of the draft genome against PlasmidFinder database (ref) by using Abricate. Any hit with coverage and/or identity below 90% was removed. To see description of each field, click here.


Select the sample

MS0495
## [1] "No plasmid replicon genes from Plasmidfinder database were found"
MS0496
## [1] "No plasmid replicon genes from Plasmidfinder database were found"
MS0497
## [1] "No plasmid replicon genes from Plasmidfinder database were found"
MS0498
## [1] "No plasmid replicon genes from Plasmidfinder database were found"
MS0499
## [1] "No plasmid replicon genes from Plasmidfinder database were found"
MS0500
## [1] "No plasmid replicon genes from Plasmidfinder database were found"
MS0501
## [1] "No plasmid replicon genes from Plasmidfinder database were found"
MS0502
## [1] "No plasmid replicon genes from Plasmidfinder database were found"
MS0503
## [1] "No plasmid replicon genes from Plasmidfinder database were found"
MS0504
## [1] "No plasmid replicon genes from Plasmidfinder database were found"


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Citation

If using TORMES, please cite:
(…)


Also cite the software that are included in TORMES pipeline:

  • Abricate
  • Convert
  • FastTree
  • Kraken
  • Mauve
  • mlst
  • Parallel
  • Prinseq
  • Prokka
  • QUAST
  • R
    • ggplot2
    • ggtree
    • knitr
    • plotly
    • RColorBrewer
    • reshape2
    • rmarkdown
  • Roary
  • roary2svg
  • SPAdes
  • Trimmomatic